-- dump date 20140619_012320 -- class Genbank::misc_feature -- table misc_feature_note -- id note 339670000001 conjugal transfer protein TrbA; Provisional; Region: PRK13890 339670000002 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670000003 salt bridge; other site 339670000004 non-specific DNA binding site [nucleotide binding]; other site 339670000005 sequence-specific DNA binding site [nucleotide binding]; other site 339670000006 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 339670000007 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 339670000008 dimer interface [polypeptide binding]; other site 339670000009 ssDNA binding site [nucleotide binding]; other site 339670000010 tetramer (dimer of dimers) interface [polypeptide binding]; other site 339670000011 TrfA protein; Region: TrfA; pfam07042 339670000012 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 339670000013 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 339670000014 Antirestriction protein; Region: Antirestrict; pfam03230 339670000015 Sec1 family; Region: Sec1; cl15415 339670000016 Protein of unknown function (DUF2761); Region: DUF2761; pfam10959 339670000017 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670000018 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 339670000019 P-loop; other site 339670000020 Magnesium ion binding site [ion binding]; other site 339670000021 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670000022 Magnesium ion binding site [ion binding]; other site 339670000023 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 339670000024 ParB-like nuclease domain; Region: ParB; smart00470 339670000025 KorB domain; Region: KorB; pfam08535 339670000026 KorB C-terminal beta-barrel domain; Region: KorB_C; pfam06613 339670000027 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 339670000028 conjugal transfer protein TraM; Provisional; Region: PRK13895 339670000029 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 339670000030 P-loop; other site 339670000031 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 339670000032 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 339670000033 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 339670000034 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 339670000035 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 339670000036 Walker A motif; other site 339670000037 ATP binding site [chemical binding]; other site 339670000038 Walker B motif; other site 339670000039 conjugal transfer peptidase TraF; Provisional; Region: PRK13884 339670000040 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 339670000041 DNA topoisomerase III; Provisional; Region: PRK07726 339670000042 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 339670000043 active site 339670000044 putative interdomain interaction site [polypeptide binding]; other site 339670000045 putative metal-binding site [ion binding]; other site 339670000046 putative nucleotide binding site [chemical binding]; other site 339670000047 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 339670000048 domain I; other site 339670000049 DNA binding groove [nucleotide binding] 339670000050 phosphate binding site [ion binding]; other site 339670000051 domain II; other site 339670000052 domain III; other site 339670000053 nucleotide binding site [chemical binding]; other site 339670000054 catalytic site [active] 339670000055 domain IV; other site 339670000056 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 339670000057 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 339670000058 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 339670000059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 339670000060 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 339670000061 active site 339670000062 metal binding site [ion binding]; metal-binding site 339670000063 interdomain interaction site; other site 339670000064 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 339670000065 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 339670000066 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670000067 S-adenosylmethionine binding site [chemical binding]; other site 339670000068 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 339670000069 ligand binding site [chemical binding]; other site 339670000070 conjugal transfer protein TrbP; Provisional; Region: PRK13882 339670000071 TraX protein; Region: TraX; pfam05857 339670000072 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670000073 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670000074 catalytic residue [active] 339670000075 conjugal transfer protein TrbM; Provisional; Region: PRK13893 339670000076 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 339670000077 entry exclusion lipoprotein TrbK; Region: TrbK_RP4; TIGR04359 339670000078 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 339670000079 conjugal transfer protein TrbI; Provisional; Region: PRK13881 339670000080 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 339670000081 conjugal transfer protein TrbH; Provisional; Region: PRK13883 339670000082 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 339670000083 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 339670000084 VirB7 interaction site; other site 339670000085 conjugal transfer protein TrbF; Provisional; Region: PRK13887 339670000086 conjugal transfer protein TrbE; Provisional; Region: PRK13891 339670000087 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 339670000088 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 339670000089 Walker A motif; other site 339670000090 ATP binding site [chemical binding]; other site 339670000091 Walker B motif; other site 339670000092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670000093 Walker B; other site 339670000094 D-loop; other site 339670000095 H-loop/switch region; other site 339670000096 conjugal transfer protein TrbD; Provisional; Region: PRK13823 339670000097 conjugal transfer protein TrbC; Provisional; Region: PRK13892 339670000098 conjugal transfer ATPase TrbB; Provisional; Region: PRK13894 339670000099 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 339670000100 ATP binding site [chemical binding]; other site 339670000101 Walker A motif; other site 339670000102 hexamer interface [polypeptide binding]; other site 339670000103 Walker B motif; other site 339670000104 DnaA N-terminal domain; Region: DnaA_N; pfam11638 339670000105 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 339670000106 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670000107 Walker A motif; other site 339670000108 ATP binding site [chemical binding]; other site 339670000109 Walker B motif; other site 339670000110 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 339670000111 arginine finger; other site 339670000112 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 339670000113 DnaA box-binding interface [nucleotide binding]; other site 339670000114 DNA polymerase III subunit beta; Validated; Region: PRK05643 339670000115 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 339670000116 putative DNA binding surface [nucleotide binding]; other site 339670000117 dimer interface [polypeptide binding]; other site 339670000118 beta-clamp/clamp loader binding surface; other site 339670000119 beta-clamp/translesion DNA polymerase binding surface; other site 339670000120 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 339670000121 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670000122 ATP binding site [chemical binding]; other site 339670000123 Mg2+ binding site [ion binding]; other site 339670000124 G-X-G motif; other site 339670000125 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 339670000126 anchoring element; other site 339670000127 dimer interface [polypeptide binding]; other site 339670000128 ATP binding site [chemical binding]; other site 339670000129 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 339670000130 active site 339670000131 putative metal-binding site [ion binding]; other site 339670000132 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 339670000133 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 339670000134 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 339670000135 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 339670000136 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 339670000137 Protein of unknown function (DUF524); Region: DUF524; pfam04411 339670000138 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 339670000139 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 339670000140 putative heme binding pocket [chemical binding]; other site 339670000141 RNA polymerase sigma factor; Provisional; Region: PRK12511 339670000142 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670000143 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670000144 DNA binding residues [nucleotide binding] 339670000145 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 339670000146 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 339670000147 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670000148 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 339670000149 Uncharacterized conserved protein [Function unknown]; Region: COG2128 339670000150 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 339670000151 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 339670000152 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 339670000153 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 339670000154 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 339670000155 Restriction endonuclease [Defense mechanisms]; Region: COG3587 339670000156 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 339670000157 ATP binding site [chemical binding]; other site 339670000158 putative Mg++ binding site [ion binding]; other site 339670000159 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 339670000160 DNA methylase; Region: N6_N4_Mtase; pfam01555 339670000161 DNA methylase; Region: N6_N4_Mtase; cl17433 339670000162 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670000163 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670000164 trimer interface [polypeptide binding]; other site 339670000165 eyelet of channel; other site 339670000166 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 339670000167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670000168 active site 339670000169 phosphorylation site [posttranslational modification] 339670000170 intermolecular recognition site; other site 339670000171 dimerization interface [polypeptide binding]; other site 339670000172 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670000173 DNA binding site [nucleotide binding] 339670000174 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 339670000175 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 339670000176 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670000177 dimer interface [polypeptide binding]; other site 339670000178 phosphorylation site [posttranslational modification] 339670000179 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670000180 ATP binding site [chemical binding]; other site 339670000181 Mg2+ binding site [ion binding]; other site 339670000182 G-X-G motif; other site 339670000183 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 339670000184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670000185 dimer interface [polypeptide binding]; other site 339670000186 conserved gate region; other site 339670000187 putative PBP binding loops; other site 339670000188 ABC-ATPase subunit interface; other site 339670000189 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 339670000190 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 339670000191 Walker A/P-loop; other site 339670000192 ATP binding site [chemical binding]; other site 339670000193 Q-loop/lid; other site 339670000194 ABC transporter signature motif; other site 339670000195 Walker B; other site 339670000196 D-loop; other site 339670000197 H-loop/switch region; other site 339670000198 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 339670000199 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 339670000200 membrane-bound complex binding site; other site 339670000201 hinge residues; other site 339670000202 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 339670000203 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 339670000204 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 339670000205 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 339670000206 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 339670000207 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 339670000208 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 339670000209 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 339670000210 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 339670000211 LrgA family; Region: LrgA; pfam03788 339670000212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670000213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670000214 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 339670000215 putative dimerization interface [polypeptide binding]; other site 339670000216 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670000217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670000218 putative substrate translocation pore; other site 339670000219 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670000220 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670000221 MarR family; Region: MarR_2; cl17246 339670000222 CHASE domain; Region: CHASE; cl01369 339670000223 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670000224 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 339670000225 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 339670000226 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 339670000227 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 339670000228 GspL periplasmic domain; Region: GspL_C; pfam12693 339670000229 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 339670000230 type II secretion system protein I; Region: gspI; TIGR01707 339670000231 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 339670000232 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 339670000233 Type II transport protein GspH; Region: GspH; pfam12019 339670000234 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 339670000235 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 339670000236 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 339670000237 type II secretion system protein F; Region: GspF; TIGR02120 339670000238 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670000239 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670000240 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 339670000241 type II secretion system protein E; Region: type_II_gspE; TIGR02533 339670000242 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 339670000243 Walker A motif; other site 339670000244 ATP binding site [chemical binding]; other site 339670000245 Walker B motif; other site 339670000246 type II secretion system protein D; Region: type_II_gspD; TIGR02517 339670000247 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 339670000248 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 339670000249 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 339670000250 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 339670000251 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 339670000252 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 339670000253 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670000254 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670000255 catalytic residue [active] 339670000256 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 339670000257 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 339670000258 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 339670000259 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 339670000260 IHF dimer interface [polypeptide binding]; other site 339670000261 IHF - DNA interface [nucleotide binding]; other site 339670000262 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 339670000263 Uncharacterized conserved protein [Function unknown]; Region: COG4121 339670000264 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670000265 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 339670000266 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 339670000267 Transcriptional regulators [Transcription]; Region: MarR; COG1846 339670000268 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670000269 putative DNA binding site [nucleotide binding]; other site 339670000270 putative Zn2+ binding site [ion binding]; other site 339670000271 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 339670000272 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 339670000273 catalytic triad [active] 339670000274 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670000275 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 339670000276 active site 339670000277 FMN binding site [chemical binding]; other site 339670000278 substrate binding site [chemical binding]; other site 339670000279 homotetramer interface [polypeptide binding]; other site 339670000280 catalytic residue [active] 339670000281 Proteins containing SET domain [General function prediction only]; Region: COG2940 339670000282 SET domain; Region: SET; pfam00856 339670000283 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 339670000284 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670000285 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670000286 dimer interface [polypeptide binding]; other site 339670000287 phosphorylation site [posttranslational modification] 339670000288 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670000289 ATP binding site [chemical binding]; other site 339670000290 Mg2+ binding site [ion binding]; other site 339670000291 G-X-G motif; other site 339670000292 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670000293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670000294 active site 339670000295 phosphorylation site [posttranslational modification] 339670000296 intermolecular recognition site; other site 339670000297 dimerization interface [polypeptide binding]; other site 339670000298 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670000299 DNA binding site [nucleotide binding] 339670000300 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 339670000301 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 339670000302 aromatic arch; other site 339670000303 DCoH dimer interaction site [polypeptide binding]; other site 339670000304 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 339670000305 DCoH tetramer interaction site [polypeptide binding]; other site 339670000306 substrate binding site [chemical binding]; other site 339670000307 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 339670000308 cofactor binding site; other site 339670000309 metal binding site [ion binding]; metal-binding site 339670000310 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670000311 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 339670000312 putative DNA binding site [nucleotide binding]; other site 339670000313 putative Zn2+ binding site [ion binding]; other site 339670000314 AsnC family; Region: AsnC_trans_reg; pfam01037 339670000315 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 339670000316 putative active site [active] 339670000317 putative metal binding residues [ion binding]; other site 339670000318 signature motif; other site 339670000319 putative triphosphate binding site [ion binding]; other site 339670000320 dimer interface [polypeptide binding]; other site 339670000321 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670000322 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670000323 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670000324 dimerization interface [polypeptide binding]; other site 339670000325 choline dehydrogenase; Validated; Region: PRK02106 339670000326 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670000327 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 339670000328 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 339670000329 Walker A/P-loop; other site 339670000330 ATP binding site [chemical binding]; other site 339670000331 Q-loop/lid; other site 339670000332 ABC transporter signature motif; other site 339670000333 Walker B; other site 339670000334 D-loop; other site 339670000335 H-loop/switch region; other site 339670000336 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 339670000337 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 339670000338 Walker A/P-loop; other site 339670000339 ATP binding site [chemical binding]; other site 339670000340 Q-loop/lid; other site 339670000341 ABC transporter signature motif; other site 339670000342 Walker B; other site 339670000343 D-loop; other site 339670000344 H-loop/switch region; other site 339670000345 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 339670000346 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 339670000347 putative ligand binding site [chemical binding]; other site 339670000348 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670000349 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 339670000350 TM-ABC transporter signature motif; other site 339670000351 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 339670000352 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670000353 TM-ABC transporter signature motif; other site 339670000354 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670000355 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 339670000356 putative ligand binding site [chemical binding]; other site 339670000357 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 339670000358 TM-ABC transporter signature motif; other site 339670000359 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 339670000360 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 339670000361 TM-ABC transporter signature motif; other site 339670000362 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 339670000363 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 339670000364 Walker A/P-loop; other site 339670000365 ATP binding site [chemical binding]; other site 339670000366 Q-loop/lid; other site 339670000367 ABC transporter signature motif; other site 339670000368 Walker B; other site 339670000369 D-loop; other site 339670000370 H-loop/switch region; other site 339670000371 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 339670000372 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 339670000373 Walker A/P-loop; other site 339670000374 ATP binding site [chemical binding]; other site 339670000375 Q-loop/lid; other site 339670000376 ABC transporter signature motif; other site 339670000377 Walker B; other site 339670000378 D-loop; other site 339670000379 H-loop/switch region; other site 339670000380 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 339670000381 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 339670000382 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 339670000383 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 339670000384 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 339670000385 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670000386 S-adenosylmethionine binding site [chemical binding]; other site 339670000387 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 339670000388 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670000389 P-loop; other site 339670000390 Magnesium ion binding site [ion binding]; other site 339670000391 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670000392 Magnesium ion binding site [ion binding]; other site 339670000393 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 339670000394 ParB-like nuclease domain; Region: ParBc; pfam02195 339670000395 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 339670000396 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 339670000397 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 339670000398 ATP synthase I chain; Region: ATP_synt_I; cl09170 339670000399 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 339670000400 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 339670000401 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 339670000402 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 339670000403 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 339670000404 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 339670000405 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 339670000406 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 339670000407 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 339670000408 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 339670000409 beta subunit interaction interface [polypeptide binding]; other site 339670000410 Walker A motif; other site 339670000411 ATP binding site [chemical binding]; other site 339670000412 Walker B motif; other site 339670000413 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 339670000414 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 339670000415 core domain interface [polypeptide binding]; other site 339670000416 delta subunit interface [polypeptide binding]; other site 339670000417 epsilon subunit interface [polypeptide binding]; other site 339670000418 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 339670000419 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 339670000420 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 339670000421 alpha subunit interaction interface [polypeptide binding]; other site 339670000422 Walker A motif; other site 339670000423 ATP binding site [chemical binding]; other site 339670000424 Walker B motif; other site 339670000425 inhibitor binding site; inhibition site 339670000426 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 339670000427 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 339670000428 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 339670000429 gamma subunit interface [polypeptide binding]; other site 339670000430 epsilon subunit interface [polypeptide binding]; other site 339670000431 LBP interface [polypeptide binding]; other site 339670000432 AMP-binding domain protein; Validated; Region: PRK08315 339670000433 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670000434 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 339670000435 acyl-activating enzyme (AAE) consensus motif; other site 339670000436 putative AMP binding site [chemical binding]; other site 339670000437 putative active site [active] 339670000438 putative CoA binding site [chemical binding]; other site 339670000439 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670000440 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670000441 substrate binding pocket [chemical binding]; other site 339670000442 membrane-bound complex binding site; other site 339670000443 hinge residues; other site 339670000444 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 339670000445 substrate binding site [chemical binding]; other site 339670000446 active site 339670000447 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 339670000448 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 339670000449 ATP binding site [chemical binding]; other site 339670000450 putative Mg++ binding site [ion binding]; other site 339670000451 helicase superfamily c-terminal domain; Region: HELICc; smart00490 339670000452 nucleotide binding region [chemical binding]; other site 339670000453 ATP-binding site [chemical binding]; other site 339670000454 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 339670000455 Predicted transcriptional regulator [Transcription]; Region: COG3905 339670000456 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 339670000457 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 339670000458 Glutamate binding site [chemical binding]; other site 339670000459 NAD binding site [chemical binding]; other site 339670000460 catalytic residues [active] 339670000461 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 339670000462 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670000463 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670000464 dimerization interface [polypeptide binding]; other site 339670000465 ligand binding site [chemical binding]; other site 339670000466 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 339670000467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670000468 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670000469 dimerization interface [polypeptide binding]; other site 339670000470 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670000471 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670000472 active site 339670000473 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670000474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670000475 putative aminotransferase; Provisional; Region: PRK12414 339670000476 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670000477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670000478 homodimer interface [polypeptide binding]; other site 339670000479 catalytic residue [active] 339670000480 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 339670000481 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670000482 substrate binding pocket [chemical binding]; other site 339670000483 membrane-bound complex binding site; other site 339670000484 hinge residues; other site 339670000485 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 339670000486 FAD binding domain; Region: FAD_binding_4; pfam01565 339670000487 Predicted transcriptional regulators [Transcription]; Region: COG1695 339670000488 Transcriptional regulator PadR-like family; Region: PadR; cl17335 339670000489 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 339670000490 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 339670000491 DNA binding residues [nucleotide binding] 339670000492 dimer interface [polypeptide binding]; other site 339670000493 putative metal binding site [ion binding]; other site 339670000494 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 339670000495 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 339670000496 Double zinc ribbon; Region: DZR; pfam12773 339670000497 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 339670000498 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 339670000499 Conserved TM helix; Region: TM_helix; pfam05552 339670000500 ethanolamine permease; Region: 2A0305; TIGR00908 339670000501 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 339670000502 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 339670000503 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 339670000504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670000505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670000506 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 339670000507 putative effector binding pocket; other site 339670000508 putative dimerization interface [polypeptide binding]; other site 339670000509 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670000510 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670000511 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 339670000512 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 339670000513 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670000514 NAD(P) binding site [chemical binding]; other site 339670000515 catalytic residues [active] 339670000516 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 339670000517 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670000518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670000519 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670000520 thiamine pyrophosphate protein; Validated; Region: PRK08199 339670000521 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 339670000522 PYR/PP interface [polypeptide binding]; other site 339670000523 dimer interface [polypeptide binding]; other site 339670000524 TPP binding site [chemical binding]; other site 339670000525 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 339670000526 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 339670000527 TPP-binding site [chemical binding]; other site 339670000528 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 339670000529 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 339670000530 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 339670000531 Alginate lyase; Region: Alginate_lyase; pfam05426 339670000532 glycine dehydrogenase; Provisional; Region: PRK05367 339670000533 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 339670000534 tetramer interface [polypeptide binding]; other site 339670000535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670000536 catalytic residue [active] 339670000537 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 339670000538 tetramer interface [polypeptide binding]; other site 339670000539 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670000540 catalytic residue [active] 339670000541 glycine cleavage system protein H; Provisional; Region: PRK13380 339670000542 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 339670000543 lipoyl attachment site [posttranslational modification]; other site 339670000544 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 339670000545 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 339670000546 putative oxidoreductase; Provisional; Region: PRK11579 339670000547 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 339670000548 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 339670000549 active site 339670000550 catalytic triad [active] 339670000551 oxyanion hole [active] 339670000552 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 339670000553 Part of AAA domain; Region: AAA_19; pfam13245 339670000554 Family description; Region: UvrD_C_2; pfam13538 339670000555 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 339670000556 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 339670000557 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670000558 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670000559 salt bridge; other site 339670000560 non-specific DNA binding site [nucleotide binding]; other site 339670000561 sequence-specific DNA binding site [nucleotide binding]; other site 339670000562 Uncharacterized conserved protein [Function unknown]; Region: COG4278 339670000563 TIGR04222 domain; Region: near_uncomplex 339670000564 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670000565 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 339670000566 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 339670000567 inhibitor-cofactor binding pocket; inhibition site 339670000568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670000569 catalytic residue [active] 339670000570 WbqC-like protein family; Region: WbqC; pfam08889 339670000571 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670000572 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670000573 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000574 binding surface 339670000575 Tetratricopeptide repeat; Region: TPR_16; pfam13432 339670000576 TPR motif; other site 339670000577 TPR repeat; Region: TPR_11; pfam13414 339670000578 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000579 binding surface 339670000580 TPR motif; other site 339670000581 TPR repeat; Region: TPR_11; pfam13414 339670000582 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670000583 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670000584 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 339670000585 NAD binding site [chemical binding]; other site 339670000586 putative substrate binding site 2 [chemical binding]; other site 339670000587 putative substrate binding site 1 [chemical binding]; other site 339670000588 active site 339670000589 Methyltransferase domain; Region: Methyltransf_23; pfam13489 339670000590 Methyltransferase domain; Region: Methyltransf_12; pfam08242 339670000591 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 339670000592 Tetratricopeptide repeat; Region: TPR_16; pfam13432 339670000593 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000594 TPR motif; other site 339670000595 binding surface 339670000596 TPR repeat; Region: TPR_11; pfam13414 339670000597 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000598 binding surface 339670000599 TPR motif; other site 339670000600 TPR repeat; Region: TPR_11; pfam13414 339670000601 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000602 binding surface 339670000603 TPR motif; other site 339670000604 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000605 TPR motif; other site 339670000606 TPR repeat; Region: TPR_11; pfam13414 339670000607 binding surface 339670000608 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000609 Tetratricopeptide repeat; Region: TPR_12; pfam13424 339670000610 binding surface 339670000611 TPR motif; other site 339670000612 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 339670000613 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000614 binding surface 339670000615 TPR motif; other site 339670000616 Tetratricopeptide repeat; Region: TPR_12; pfam13424 339670000617 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000618 binding surface 339670000619 TPR motif; other site 339670000620 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 339670000621 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000622 binding surface 339670000623 TPR motif; other site 339670000624 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000625 binding surface 339670000626 TPR motif; other site 339670000627 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 339670000628 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 339670000629 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670000630 Tetratricopeptide repeat; Region: TPR_12; pfam13424 339670000631 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670000632 binding surface 339670000633 TPR motif; other site 339670000634 TPR repeat; Region: TPR_11; pfam13414 339670000635 Tetratricopeptide repeat; Region: TPR_16; pfam13432 339670000636 Tetratricopeptide repeat; Region: TPR_17; pfam13431 339670000637 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 339670000638 binding surface 339670000639 TPR motif; other site 339670000640 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 339670000641 Flagellar protein FliT; Region: FliT; pfam05400 339670000642 flagellar capping protein; Reviewed; Region: fliD; PRK08032 339670000643 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 339670000644 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 339670000645 flagellin; Provisional; Region: PRK12802 339670000646 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 339670000647 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 339670000648 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 339670000649 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 339670000650 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 339670000651 putative hydrolase; Provisional; Region: PRK10976 339670000652 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670000653 active site 339670000654 motif I; other site 339670000655 motif II; other site 339670000656 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 339670000657 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 339670000658 amphipathic channel; other site 339670000659 Asn-Pro-Ala signature motifs; other site 339670000660 H-NS histone family; Region: Histone_HNS; pfam00816 339670000661 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670000662 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 339670000663 putative ADP-binding pocket [chemical binding]; other site 339670000664 transcriptional activator FlhD; Provisional; Region: PRK02909 339670000665 transcriptional activator FlhC; Provisional; Region: PRK12722 339670000666 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 339670000667 flagellar motor protein MotA; Validated; Region: PRK09110 339670000668 flagellar motor protein MotB; Validated; Region: motB; PRK09041 339670000669 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 339670000670 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670000671 ligand binding site [chemical binding]; other site 339670000672 Response regulator receiver domain; Region: Response_reg; pfam00072 339670000673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670000674 active site 339670000675 phosphorylation site [posttranslational modification] 339670000676 intermolecular recognition site; other site 339670000677 dimerization interface [polypeptide binding]; other site 339670000678 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 339670000679 putative binding surface; other site 339670000680 active site 339670000681 CheY binding; Region: CheY-binding; pfam09078 339670000682 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 339670000683 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670000684 ATP binding site [chemical binding]; other site 339670000685 Mg2+ binding site [ion binding]; other site 339670000686 G-X-G motif; other site 339670000687 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 339670000688 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 339670000689 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 339670000690 dimer interface [polypeptide binding]; other site 339670000691 ligand binding site [chemical binding]; other site 339670000692 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670000693 dimerization interface [polypeptide binding]; other site 339670000694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670000695 dimer interface [polypeptide binding]; other site 339670000696 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 339670000697 putative CheW interface [polypeptide binding]; other site 339670000698 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 339670000699 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 339670000700 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 339670000701 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 339670000702 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 339670000703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670000704 active site 339670000705 phosphorylation site [posttranslational modification] 339670000706 intermolecular recognition site; other site 339670000707 dimerization interface [polypeptide binding]; other site 339670000708 CheB methylesterase; Region: CheB_methylest; pfam01339 339670000709 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 339670000710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670000711 active site 339670000712 phosphorylation site [posttranslational modification] 339670000713 intermolecular recognition site; other site 339670000714 dimerization interface [polypeptide binding]; other site 339670000715 chemotaxis regulator CheZ; Provisional; Region: PRK11166 339670000716 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 339670000717 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 339670000718 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 339670000719 dimer interface [polypeptide binding]; other site 339670000720 Protein of unknown function (DUF805); Region: DUF805; pfam05656 339670000721 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 339670000722 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 339670000723 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 339670000724 FHIPEP family; Region: FHIPEP; pfam00771 339670000725 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 339670000726 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 339670000727 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 339670000728 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 339670000729 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670000730 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 339670000731 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670000732 DNA binding residues [nucleotide binding] 339670000733 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 339670000734 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 339670000735 homotetramer interface [polypeptide binding]; other site 339670000736 ligand binding site [chemical binding]; other site 339670000737 catalytic site [active] 339670000738 NAD binding site [chemical binding]; other site 339670000739 Predicted membrane protein [Function unknown]; Region: COG1950 339670000740 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 339670000741 FAD binding site [chemical binding]; other site 339670000742 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 339670000743 Amidase; Region: Amidase; cl11426 339670000744 Dienelactone hydrolase family; Region: DLH; pfam01738 339670000745 Nitronate monooxygenase; Region: NMO; pfam03060 339670000746 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 339670000747 FMN binding site [chemical binding]; other site 339670000748 substrate binding site [chemical binding]; other site 339670000749 putative catalytic residue [active] 339670000750 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670000751 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670000752 dimerization interface [polypeptide binding]; other site 339670000753 ligand binding site [chemical binding]; other site 339670000754 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670000755 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670000756 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 339670000757 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 339670000758 H-NS histone family; Region: Histone_HNS; pfam00816 339670000759 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 339670000760 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 339670000761 Cation efflux family; Region: Cation_efflux; pfam01545 339670000762 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670000763 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670000764 putative DNA binding site [nucleotide binding]; other site 339670000765 putative Zn2+ binding site [ion binding]; other site 339670000766 AsnC family; Region: AsnC_trans_reg; pfam01037 339670000767 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 339670000768 active site 339670000769 substrate binding site [chemical binding]; other site 339670000770 catalytic site [active] 339670000771 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 339670000772 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 339670000773 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 339670000774 Predicted methyltransferases [General function prediction only]; Region: COG0313 339670000775 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 339670000776 putative SAM binding site [chemical binding]; other site 339670000777 putative homodimer interface [polypeptide binding]; other site 339670000778 hypothetical protein; Provisional; Region: PRK14673 339670000779 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 339670000780 dimer interface [polypeptide binding]; other site 339670000781 active site 339670000782 outer membrane lipoprotein; Provisional; Region: PRK11023 339670000783 BON domain; Region: BON; pfam04972 339670000784 BON domain; Region: BON; cl02771 339670000785 Cytochrome c551/c552 [Energy production and conversion]; Region: COG4654 339670000786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 339670000787 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 339670000788 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 339670000789 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 339670000790 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 339670000791 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 339670000792 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 339670000793 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 339670000794 PAAR motif; Region: PAAR_motif; pfam05488 339670000795 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 339670000796 CGNR zinc finger; Region: zf-CGNR; pfam11706 339670000797 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 339670000798 active site 339670000799 Mn binding site [ion binding]; other site 339670000800 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 339670000801 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 339670000802 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 339670000803 active site 339670000804 tetramer interface [polypeptide binding]; other site 339670000805 D-galactonate transporter; Region: 2A0114; TIGR00893 339670000806 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670000807 putative substrate translocation pore; other site 339670000808 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 339670000809 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 339670000810 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 339670000811 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 339670000812 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 339670000813 FtsX-like permease family; Region: FtsX; pfam02687 339670000814 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 339670000815 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 339670000816 Walker A/P-loop; other site 339670000817 ATP binding site [chemical binding]; other site 339670000818 Q-loop/lid; other site 339670000819 ABC transporter signature motif; other site 339670000820 Walker B; other site 339670000821 D-loop; other site 339670000822 H-loop/switch region; other site 339670000823 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 339670000824 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670000825 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670000826 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 339670000827 Uncharacterized conserved protein [Function unknown]; Region: COG1656 339670000828 Protein of unknown function DUF82; Region: DUF82; pfam01927 339670000829 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 339670000830 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 339670000831 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670000832 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 339670000833 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670000834 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670000835 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670000836 dimerization interface [polypeptide binding]; other site 339670000837 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 339670000838 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 339670000839 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 339670000840 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 339670000841 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 339670000842 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 339670000843 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670000844 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 339670000845 substrate binding site [chemical binding]; other site 339670000846 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670000847 active site 339670000848 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 339670000849 Malic enzyme, N-terminal domain; Region: malic; pfam00390 339670000850 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 339670000851 putative NAD(P) binding site [chemical binding]; other site 339670000852 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 339670000853 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 339670000854 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 339670000855 dimer interface [polypeptide binding]; other site 339670000856 PYR/PP interface [polypeptide binding]; other site 339670000857 TPP binding site [chemical binding]; other site 339670000858 substrate binding site [chemical binding]; other site 339670000859 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 339670000860 TPP-binding site; other site 339670000861 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 339670000862 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 339670000863 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 339670000864 dimer interface [polypeptide binding]; other site 339670000865 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 339670000866 active site 339670000867 Fe binding site [ion binding]; other site 339670000868 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670000869 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670000870 putative DNA binding site [nucleotide binding]; other site 339670000871 putative Zn2+ binding site [ion binding]; other site 339670000872 AsnC family; Region: AsnC_trans_reg; pfam01037 339670000873 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 339670000874 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670000875 Coenzyme A binding pocket [chemical binding]; other site 339670000876 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670000877 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670000878 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 339670000879 Protein of unknown function; Region: DUF3658; pfam12395 339670000880 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 339670000881 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 339670000882 FAD binding pocket [chemical binding]; other site 339670000883 FAD binding motif [chemical binding]; other site 339670000884 phosphate binding motif [ion binding]; other site 339670000885 beta-alpha-beta structure motif; other site 339670000886 NAD(p) ribose binding residues [chemical binding]; other site 339670000887 NAD binding pocket [chemical binding]; other site 339670000888 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 339670000889 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670000890 catalytic loop [active] 339670000891 iron binding site [ion binding]; other site 339670000892 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 339670000893 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 339670000894 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 339670000895 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 339670000896 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 339670000897 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 339670000898 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 339670000899 active site 339670000900 catalytic triad [active] 339670000901 oxyanion hole [active] 339670000902 elongation factor Tu; Reviewed; Region: PRK00049 339670000903 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 339670000904 G1 box; other site 339670000905 GEF interaction site [polypeptide binding]; other site 339670000906 GTP/Mg2+ binding site [chemical binding]; other site 339670000907 Switch I region; other site 339670000908 G2 box; other site 339670000909 G3 box; other site 339670000910 Switch II region; other site 339670000911 G4 box; other site 339670000912 G5 box; other site 339670000913 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 339670000914 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 339670000915 Antibiotic Binding Site [chemical binding]; other site 339670000916 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 339670000917 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 339670000918 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 339670000919 putative homodimer interface [polypeptide binding]; other site 339670000920 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 339670000921 heterodimer interface [polypeptide binding]; other site 339670000922 homodimer interface [polypeptide binding]; other site 339670000923 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 339670000924 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 339670000925 23S rRNA interface [nucleotide binding]; other site 339670000926 L7/L12 interface [polypeptide binding]; other site 339670000927 putative thiostrepton binding site; other site 339670000928 L25 interface [polypeptide binding]; other site 339670000929 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 339670000930 mRNA/rRNA interface [nucleotide binding]; other site 339670000931 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 339670000932 23S rRNA interface [nucleotide binding]; other site 339670000933 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 339670000934 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 339670000935 peripheral dimer interface [polypeptide binding]; other site 339670000936 core dimer interface [polypeptide binding]; other site 339670000937 L10 interface [polypeptide binding]; other site 339670000938 L11 interface [polypeptide binding]; other site 339670000939 putative EF-Tu interaction site [polypeptide binding]; other site 339670000940 putative EF-G interaction site [polypeptide binding]; other site 339670000941 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 339670000942 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 339670000943 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 339670000944 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 339670000945 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 339670000946 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 339670000947 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 339670000948 RPB3 interaction site [polypeptide binding]; other site 339670000949 RPB1 interaction site [polypeptide binding]; other site 339670000950 RPB11 interaction site [polypeptide binding]; other site 339670000951 RPB10 interaction site [polypeptide binding]; other site 339670000952 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 339670000953 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 339670000954 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 339670000955 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 339670000956 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 339670000957 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 339670000958 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 339670000959 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 339670000960 DNA binding site [nucleotide binding] 339670000961 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 339670000962 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 339670000963 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 339670000964 ATP binding site [chemical binding]; other site 339670000965 putative Mg++ binding site [ion binding]; other site 339670000966 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670000967 nucleotide binding region [chemical binding]; other site 339670000968 ATP-binding site [chemical binding]; other site 339670000969 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 339670000970 HRDC domain; Region: HRDC; pfam00570 339670000971 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 339670000972 S17 interaction site [polypeptide binding]; other site 339670000973 S8 interaction site; other site 339670000974 16S rRNA interaction site [nucleotide binding]; other site 339670000975 streptomycin interaction site [chemical binding]; other site 339670000976 23S rRNA interaction site [nucleotide binding]; other site 339670000977 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 339670000978 30S ribosomal protein S7; Validated; Region: PRK05302 339670000979 elongation factor G; Reviewed; Region: PRK00007 339670000980 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 339670000981 G1 box; other site 339670000982 putative GEF interaction site [polypeptide binding]; other site 339670000983 GTP/Mg2+ binding site [chemical binding]; other site 339670000984 Switch I region; other site 339670000985 G2 box; other site 339670000986 G3 box; other site 339670000987 Switch II region; other site 339670000988 G4 box; other site 339670000989 G5 box; other site 339670000990 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 339670000991 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 339670000992 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 339670000993 elongation factor Tu; Reviewed; Region: PRK00049 339670000994 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 339670000995 G1 box; other site 339670000996 GEF interaction site [polypeptide binding]; other site 339670000997 GTP/Mg2+ binding site [chemical binding]; other site 339670000998 Switch I region; other site 339670000999 G2 box; other site 339670001000 G3 box; other site 339670001001 Switch II region; other site 339670001002 G4 box; other site 339670001003 G5 box; other site 339670001004 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 339670001005 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 339670001006 Antibiotic Binding Site [chemical binding]; other site 339670001007 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 339670001008 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 339670001009 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 339670001010 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 339670001011 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 339670001012 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 339670001013 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 339670001014 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 339670001015 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 339670001016 putative translocon binding site; other site 339670001017 protein-rRNA interface [nucleotide binding]; other site 339670001018 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 339670001019 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 339670001020 G-X-X-G motif; other site 339670001021 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 339670001022 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 339670001023 23S rRNA interface [nucleotide binding]; other site 339670001024 5S rRNA interface [nucleotide binding]; other site 339670001025 putative antibiotic binding site [chemical binding]; other site 339670001026 L25 interface [polypeptide binding]; other site 339670001027 L27 interface [polypeptide binding]; other site 339670001028 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 339670001029 23S rRNA interface [nucleotide binding]; other site 339670001030 putative translocon interaction site; other site 339670001031 signal recognition particle (SRP54) interaction site; other site 339670001032 L23 interface [polypeptide binding]; other site 339670001033 trigger factor interaction site; other site 339670001034 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 339670001035 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 339670001036 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 339670001037 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 339670001038 RNA binding site [nucleotide binding]; other site 339670001039 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 339670001040 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 339670001041 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 339670001042 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 339670001043 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 339670001044 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 339670001045 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 339670001046 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 339670001047 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 339670001048 5S rRNA interface [nucleotide binding]; other site 339670001049 L27 interface [polypeptide binding]; other site 339670001050 23S rRNA interface [nucleotide binding]; other site 339670001051 L5 interface [polypeptide binding]; other site 339670001052 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 339670001053 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 339670001054 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 339670001055 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 339670001056 23S rRNA binding site [nucleotide binding]; other site 339670001057 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 339670001058 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 339670001059 SecY translocase; Region: SecY; pfam00344 339670001060 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 339670001061 rRNA binding site [nucleotide binding]; other site 339670001062 predicted 30S ribosome binding site; other site 339670001063 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 339670001064 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 339670001065 30S ribosomal protein S13; Region: bact_S13; TIGR03631 339670001066 30S ribosomal protein S11; Validated; Region: PRK05309 339670001067 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 339670001068 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 339670001069 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 339670001070 RNA binding surface [nucleotide binding]; other site 339670001071 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 339670001072 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 339670001073 alphaNTD homodimer interface [polypeptide binding]; other site 339670001074 alphaNTD - beta interaction site [polypeptide binding]; other site 339670001075 alphaNTD - beta' interaction site [polypeptide binding]; other site 339670001076 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 339670001077 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 339670001078 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 339670001079 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 339670001080 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 339670001081 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 339670001082 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 339670001083 DsbD alpha interface [polypeptide binding]; other site 339670001084 catalytic residues [active] 339670001085 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 339670001086 dimer interface [polypeptide binding]; other site 339670001087 active site 339670001088 aspartate-rich active site metal binding site; other site 339670001089 allosteric magnesium binding site [ion binding]; other site 339670001090 Schiff base residues; other site 339670001091 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 339670001092 G1 box; other site 339670001093 GTP/Mg2+ binding site [chemical binding]; other site 339670001094 Switch I region; other site 339670001095 G2 box; other site 339670001096 G3 box; other site 339670001097 Switch II region; other site 339670001098 G4 box; other site 339670001099 G5 box; other site 339670001100 Cytochrome c553 [Energy production and conversion]; Region: COG2863 339670001101 Cytochrome c; Region: Cytochrom_C; cl11414 339670001102 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 339670001103 ResB-like family; Region: ResB; pfam05140 339670001104 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 339670001105 ResB-like family; Region: ResB; pfam05140 339670001106 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 339670001107 TMAO/DMSO reductase; Reviewed; Region: PRK05363 339670001108 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 339670001109 Moco binding site; other site 339670001110 metal coordination site [ion binding]; other site 339670001111 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 339670001112 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 339670001113 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 339670001114 putative iron binding site [ion binding]; other site 339670001115 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 339670001116 Transglycosylase; Region: Transgly; pfam00912 339670001117 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 339670001118 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 339670001119 Secretin and TonB N terminus short domain; Region: STN; pfam07660 339670001120 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 339670001121 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 339670001122 shikimate kinase; Reviewed; Region: aroK; PRK00131 339670001123 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 339670001124 ADP binding site [chemical binding]; other site 339670001125 magnesium binding site [ion binding]; other site 339670001126 putative shikimate binding site; other site 339670001127 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 339670001128 active site 339670001129 dimer interface [polypeptide binding]; other site 339670001130 metal binding site [ion binding]; metal-binding site 339670001131 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 339670001132 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 339670001133 Zn2+ binding site [ion binding]; other site 339670001134 Mg2+ binding site [ion binding]; other site 339670001135 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 339670001136 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 339670001137 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 339670001138 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 339670001139 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670001140 dimer interface [polypeptide binding]; other site 339670001141 conserved gate region; other site 339670001142 putative PBP binding loops; other site 339670001143 ABC-ATPase subunit interface; other site 339670001144 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 339670001145 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670001146 dimer interface [polypeptide binding]; other site 339670001147 conserved gate region; other site 339670001148 putative PBP binding loops; other site 339670001149 ABC-ATPase subunit interface; other site 339670001150 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 339670001151 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 339670001152 Walker A/P-loop; other site 339670001153 ATP binding site [chemical binding]; other site 339670001154 Q-loop/lid; other site 339670001155 ABC transporter signature motif; other site 339670001156 Walker B; other site 339670001157 D-loop; other site 339670001158 H-loop/switch region; other site 339670001159 TOBE domain; Region: TOBE_2; pfam08402 339670001160 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 339670001161 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 339670001162 putative active site [active] 339670001163 catalytic site [active] 339670001164 putative metal binding site [ion binding]; other site 339670001165 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 339670001166 Transposase IS200 like; Region: Y1_Tnp; cl00848 339670001167 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 339670001168 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 339670001169 active site 339670001170 dimer interface [polypeptide binding]; other site 339670001171 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 339670001172 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 339670001173 active site 339670001174 FMN binding site [chemical binding]; other site 339670001175 substrate binding site [chemical binding]; other site 339670001176 3Fe-4S cluster binding site [ion binding]; other site 339670001177 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 339670001178 domain interface; other site 339670001179 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 339670001180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670001181 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 339670001182 amino acid carrier protein; Region: agcS; TIGR00835 339670001183 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 339670001184 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 339670001185 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 339670001186 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 339670001187 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 339670001188 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 339670001189 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 339670001190 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 339670001191 thiS-thiF/thiG interaction site; other site 339670001192 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 339670001193 ThiS interaction site; other site 339670001194 putative active site [active] 339670001195 tetramer interface [polypeptide binding]; other site 339670001196 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 339670001197 thiamine phosphate binding site [chemical binding]; other site 339670001198 active site 339670001199 pyrophosphate binding site [ion binding]; other site 339670001200 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 339670001201 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 339670001202 Walker A/P-loop; other site 339670001203 ATP binding site [chemical binding]; other site 339670001204 Q-loop/lid; other site 339670001205 ABC transporter signature motif; other site 339670001206 Walker B; other site 339670001207 D-loop; other site 339670001208 H-loop/switch region; other site 339670001209 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 339670001210 Permease; Region: Permease; pfam02405 339670001211 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 339670001212 mce related protein; Region: MCE; pfam02470 339670001213 VacJ like lipoprotein; Region: VacJ; cl01073 339670001214 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 339670001215 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 339670001216 anti sigma factor interaction site; other site 339670001217 regulatory phosphorylation site [posttranslational modification]; other site 339670001218 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 339670001219 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 339670001220 Walker A/P-loop; other site 339670001221 ATP binding site [chemical binding]; other site 339670001222 Q-loop/lid; other site 339670001223 ABC transporter signature motif; other site 339670001224 Walker B; other site 339670001225 D-loop; other site 339670001226 H-loop/switch region; other site 339670001227 ABC-2 type transporter; Region: ABC2_membrane; cl17235 339670001228 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 339670001229 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 339670001230 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 339670001231 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 339670001232 hinge; other site 339670001233 active site 339670001234 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 339670001235 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 339670001236 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 339670001237 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 339670001238 NAD binding site [chemical binding]; other site 339670001239 dimerization interface [polypeptide binding]; other site 339670001240 product binding site; other site 339670001241 substrate binding site [chemical binding]; other site 339670001242 zinc binding site [ion binding]; other site 339670001243 catalytic residues [active] 339670001244 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 339670001245 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670001246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670001247 homodimer interface [polypeptide binding]; other site 339670001248 catalytic residue [active] 339670001249 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 339670001250 putative active site pocket [active] 339670001251 4-fold oligomerization interface [polypeptide binding]; other site 339670001252 metal binding residues [ion binding]; metal-binding site 339670001253 3-fold/trimer interface [polypeptide binding]; other site 339670001254 MarC family integral membrane protein; Region: MarC; cl00919 339670001255 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 339670001256 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 339670001257 putative active site [active] 339670001258 oxyanion strand; other site 339670001259 catalytic triad [active] 339670001260 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 339670001261 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 339670001262 catalytic residues [active] 339670001263 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 339670001264 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 339670001265 substrate binding site [chemical binding]; other site 339670001266 glutamase interaction surface [polypeptide binding]; other site 339670001267 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 339670001268 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 339670001269 metal binding site [ion binding]; metal-binding site 339670001270 Predicted membrane protein [Function unknown]; Region: COG3671 339670001271 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 339670001272 nucleotide binding site/active site [active] 339670001273 HIT family signature motif; other site 339670001274 catalytic residue [active] 339670001275 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 339670001276 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 339670001277 sec-independent translocase; Provisional; Region: tatB; PRK01919 339670001278 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 339670001279 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 339670001280 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 339670001281 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 339670001282 protein binding site [polypeptide binding]; other site 339670001283 Uncharacterized conserved protein [Function unknown]; Region: COG0327 339670001284 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 339670001285 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 339670001286 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 339670001287 [2Fe-2S] cluster binding site [ion binding]; other site 339670001288 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 339670001289 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 339670001290 Qi binding site; other site 339670001291 intrachain domain interface; other site 339670001292 interchain domain interface [polypeptide binding]; other site 339670001293 heme bH binding site [chemical binding]; other site 339670001294 heme bL binding site [chemical binding]; other site 339670001295 Qo binding site; other site 339670001296 interchain domain interface [polypeptide binding]; other site 339670001297 intrachain domain interface; other site 339670001298 Qi binding site; other site 339670001299 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 339670001300 Qo binding site; other site 339670001301 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 339670001302 stringent starvation protein A; Provisional; Region: sspA; PRK09481 339670001303 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 339670001304 C-terminal domain interface [polypeptide binding]; other site 339670001305 putative GSH binding site (G-site) [chemical binding]; other site 339670001306 dimer interface [polypeptide binding]; other site 339670001307 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 339670001308 dimer interface [polypeptide binding]; other site 339670001309 N-terminal domain interface [polypeptide binding]; other site 339670001310 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 339670001311 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670001312 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670001313 substrate binding pocket [chemical binding]; other site 339670001314 membrane-bound complex binding site; other site 339670001315 hinge residues; other site 339670001316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 339670001317 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 339670001318 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 339670001319 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 339670001320 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 339670001321 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 339670001322 RHS Repeat; Region: RHS_repeat; cl11982 339670001323 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 339670001324 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 339670001325 RHS Repeat; Region: RHS_repeat; pfam05593 339670001326 RHS Repeat; Region: RHS_repeat; pfam05593 339670001327 RHS Repeat; Region: RHS_repeat; pfam05593 339670001328 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 339670001329 RHS protein; Region: RHS; pfam03527 339670001330 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 339670001331 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 339670001332 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 339670001333 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 339670001334 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 339670001335 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 339670001336 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670001337 TPR motif; other site 339670001338 binding surface 339670001339 Protein of unknown function (DUF770); Region: DUF770; pfam05591 339670001340 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 339670001341 Protein of unknown function (DUF877); Region: DUF877; pfam05943 339670001342 Protein of unknown function (DUF796); Region: DUF796; pfam05638 339670001343 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 339670001344 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 339670001345 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 339670001346 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 339670001347 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 339670001348 Clp amino terminal domain; Region: Clp_N; pfam02861 339670001349 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670001350 Walker A motif; other site 339670001351 ATP binding site [chemical binding]; other site 339670001352 Walker B motif; other site 339670001353 arginine finger; other site 339670001354 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670001355 Walker A motif; other site 339670001356 ATP binding site [chemical binding]; other site 339670001357 Walker B motif; other site 339670001358 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 339670001359 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 339670001360 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 339670001361 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 339670001362 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 339670001363 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670001364 ligand binding site [chemical binding]; other site 339670001365 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 339670001366 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 339670001367 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 339670001368 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 339670001369 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 339670001370 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 339670001371 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 339670001372 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 339670001373 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 339670001374 Cl binding site [ion binding]; other site 339670001375 oligomer interface [polypeptide binding]; other site 339670001376 Peptidase family M1; Region: Peptidase_M1; pfam01433 339670001377 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 339670001378 Zn binding site [ion binding]; other site 339670001379 Water Stress and Hypersensitive response; Region: WHy; smart00769 339670001380 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 339670001381 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 339670001382 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 339670001383 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670001384 S-adenosylmethionine binding site [chemical binding]; other site 339670001385 Methyltransferase domain; Region: Methyltransf_32; pfam13679 339670001386 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 339670001387 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670001388 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670001389 putative substrate translocation pore; other site 339670001390 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670001391 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 339670001392 putative FMN binding site [chemical binding]; other site 339670001393 putative chaperone; Provisional; Region: PRK11678 339670001394 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 339670001395 nucleotide binding site [chemical binding]; other site 339670001396 putative NEF/HSP70 interaction site [polypeptide binding]; other site 339670001397 SBD interface [polypeptide binding]; other site 339670001398 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 339670001399 DNA-binding site [nucleotide binding]; DNA binding site 339670001400 RNA-binding motif; other site 339670001401 amino acid transporter; Region: 2A0306; TIGR00909 339670001402 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 339670001403 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 339670001404 putative active site [active] 339670001405 metal binding site [ion binding]; metal-binding site 339670001406 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 339670001407 Flavoprotein; Region: Flavoprotein; pfam02441 339670001408 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 339670001409 putative GSH binding site [chemical binding]; other site 339670001410 catalytic residues [active] 339670001411 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 339670001412 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670001413 S-adenosylmethionine binding site [chemical binding]; other site 339670001414 peptide chain release factor 1; Validated; Region: prfA; PRK00591 339670001415 This domain is found in peptide chain release factors; Region: PCRF; smart00937 339670001416 RF-1 domain; Region: RF-1; pfam00472 339670001417 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 339670001418 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 339670001419 tRNA; other site 339670001420 putative tRNA binding site [nucleotide binding]; other site 339670001421 putative NADP binding site [chemical binding]; other site 339670001422 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 339670001423 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670001424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670001425 active site 339670001426 phosphorylation site [posttranslational modification] 339670001427 intermolecular recognition site; other site 339670001428 dimerization interface [polypeptide binding]; other site 339670001429 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670001430 DNA binding site [nucleotide binding] 339670001431 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 339670001432 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 339670001433 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 339670001434 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 339670001435 active site 339670001436 Isochorismatase family; Region: Isochorismatase; pfam00857 339670001437 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 339670001438 catalytic triad [active] 339670001439 conserved cis-peptide bond; other site 339670001440 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 339670001441 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 339670001442 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 339670001443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670001444 Walker A/P-loop; other site 339670001445 ATP binding site [chemical binding]; other site 339670001446 Q-loop/lid; other site 339670001447 ABC transporter signature motif; other site 339670001448 Walker B; other site 339670001449 D-loop; other site 339670001450 H-loop/switch region; other site 339670001451 ABC transporter; Region: ABC_tran_2; pfam12848 339670001452 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 339670001453 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 339670001454 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670001455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670001456 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670001457 dimerization interface [polypeptide binding]; other site 339670001458 substrate binding pocket [chemical binding]; other site 339670001459 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 339670001460 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670001461 putative substrate translocation pore; other site 339670001462 Protein of unknown function (DUF419); Region: DUF419; cl15265 339670001463 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 339670001464 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 339670001465 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670001466 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 339670001467 FeS/SAM binding site; other site 339670001468 GTP-binding protein YchF; Reviewed; Region: PRK09601 339670001469 YchF GTPase; Region: YchF; cd01900 339670001470 G1 box; other site 339670001471 GTP/Mg2+ binding site [chemical binding]; other site 339670001472 Switch I region; other site 339670001473 G2 box; other site 339670001474 Switch II region; other site 339670001475 G3 box; other site 339670001476 G4 box; other site 339670001477 G5 box; other site 339670001478 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 339670001479 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 339670001480 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 339670001481 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 339670001482 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 339670001483 dimerization domain [polypeptide binding]; other site 339670001484 dimer interface [polypeptide binding]; other site 339670001485 catalytic residues [active] 339670001486 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 339670001487 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 339670001488 PDZ domain; Region: PDZ_2; pfam13180 339670001489 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 339670001490 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670001491 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 339670001492 ligand binding site [chemical binding]; other site 339670001493 active site 339670001494 UGI interface [polypeptide binding]; other site 339670001495 catalytic site [active] 339670001496 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 339670001497 putative active site [active] 339670001498 putative metal binding residues [ion binding]; other site 339670001499 signature motif; other site 339670001500 putative triphosphate binding site [ion binding]; other site 339670001501 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 339670001502 active site 339670001503 ribulose/triose binding site [chemical binding]; other site 339670001504 phosphate binding site [ion binding]; other site 339670001505 substrate (anthranilate) binding pocket [chemical binding]; other site 339670001506 product (indole) binding pocket [chemical binding]; other site 339670001507 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 339670001508 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 339670001509 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 339670001510 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 339670001511 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 339670001512 glutamine binding [chemical binding]; other site 339670001513 catalytic triad [active] 339670001514 anthranilate synthase component I; Provisional; Region: PRK13565 339670001515 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 339670001516 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 339670001517 phosphoglycolate phosphatase; Provisional; Region: PRK13222 339670001518 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670001519 motif II; other site 339670001520 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 339670001521 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 339670001522 substrate binding site [chemical binding]; other site 339670001523 hexamer interface [polypeptide binding]; other site 339670001524 metal binding site [ion binding]; metal-binding site 339670001525 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 339670001526 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 339670001527 MltA specific insert domain; Region: MltA; smart00925 339670001528 3D domain; Region: 3D; pfam06725 339670001529 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 339670001530 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 339670001531 active site 339670001532 AMP binding site [chemical binding]; other site 339670001533 homodimer interface [polypeptide binding]; other site 339670001534 acyl-activating enzyme (AAE) consensus motif; other site 339670001535 CoA binding site [chemical binding]; other site 339670001536 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 339670001537 CoenzymeA binding site [chemical binding]; other site 339670001538 subunit interaction site [polypeptide binding]; other site 339670001539 PHB binding site; other site 339670001540 enoyl-CoA hydratase; Provisional; Region: PRK08140 339670001541 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670001542 substrate binding site [chemical binding]; other site 339670001543 oxyanion hole (OAH) forming residues; other site 339670001544 trimer interface [polypeptide binding]; other site 339670001545 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 339670001546 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 339670001547 dimer interface [polypeptide binding]; other site 339670001548 active site 339670001549 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 339670001550 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 339670001551 NAD(P) binding site [chemical binding]; other site 339670001552 catalytic residues [active] 339670001553 enoyl-CoA hydratase; Provisional; Region: PRK05862 339670001554 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670001555 substrate binding site [chemical binding]; other site 339670001556 oxyanion hole (OAH) forming residues; other site 339670001557 trimer interface [polypeptide binding]; other site 339670001558 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 339670001559 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 339670001560 putative [4Fe-4S] binding site [ion binding]; other site 339670001561 putative molybdopterin cofactor binding site [chemical binding]; other site 339670001562 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 339670001563 putative molybdopterin cofactor binding site; other site 339670001564 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 339670001565 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 339670001566 acyl-activating enzyme (AAE) consensus motif; other site 339670001567 putative AMP binding site [chemical binding]; other site 339670001568 putative active site [active] 339670001569 putative CoA binding site [chemical binding]; other site 339670001570 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670001571 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670001572 trimer interface [polypeptide binding]; other site 339670001573 eyelet of channel; other site 339670001574 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 339670001575 diiron binding motif [ion binding]; other site 339670001576 cell division protein MraZ; Reviewed; Region: PRK00326 339670001577 MraZ protein; Region: MraZ; pfam02381 339670001578 MraZ protein; Region: MraZ; pfam02381 339670001579 MraW methylase family; Region: Methyltransf_5; cl17771 339670001580 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 339670001581 Cell division protein FtsL; Region: FtsL; cl11433 339670001582 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 339670001583 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 339670001584 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 339670001585 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 339670001586 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 339670001587 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 339670001588 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 339670001589 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 339670001590 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 339670001591 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 339670001592 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 339670001593 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 339670001594 Mg++ binding site [ion binding]; other site 339670001595 putative catalytic motif [active] 339670001596 putative substrate binding site [chemical binding]; other site 339670001597 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 339670001598 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 339670001599 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 339670001600 cell division protein FtsW; Region: ftsW; TIGR02614 339670001601 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 339670001602 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 339670001603 active site 339670001604 homodimer interface [polypeptide binding]; other site 339670001605 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 339670001606 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 339670001607 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 339670001608 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 339670001609 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 339670001610 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 339670001611 ATP-grasp domain; Region: ATP-grasp_4; cl17255 339670001612 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 339670001613 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 339670001614 Cell division protein FtsQ; Region: FtsQ; pfam03799 339670001615 cell division protein FtsA; Region: ftsA; TIGR01174 339670001616 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 339670001617 nucleotide binding site [chemical binding]; other site 339670001618 Cell division protein FtsA; Region: FtsA; pfam14450 339670001619 cell division protein FtsZ; Validated; Region: PRK09330 339670001620 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 339670001621 nucleotide binding site [chemical binding]; other site 339670001622 SulA interaction site; other site 339670001623 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 339670001624 catalytic triad [active] 339670001625 dimer interface [polypeptide binding]; other site 339670001626 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 339670001627 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 339670001628 Protein of unknown function (DUF721); Region: DUF721; pfam05258 339670001629 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 339670001630 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 339670001631 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 339670001632 SEC-C motif; Region: SEC-C; pfam02810 339670001633 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 339670001634 heterotetramer interface [polypeptide binding]; other site 339670001635 active site pocket [active] 339670001636 cleavage site 339670001637 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 339670001638 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670001639 Walker A motif; other site 339670001640 ATP binding site [chemical binding]; other site 339670001641 Walker B motif; other site 339670001642 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 339670001643 active site 339670001644 8-oxo-dGMP binding site [chemical binding]; other site 339670001645 nudix motif; other site 339670001646 metal binding site [ion binding]; metal-binding site 339670001647 Domain of unknown function (DUF329); Region: DUF329; pfam03884 339670001648 hypothetical protein; Provisional; Region: PRK05287 339670001649 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 339670001650 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 339670001651 CoA-binding site [chemical binding]; other site 339670001652 ATP-binding [chemical binding]; other site 339670001653 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 339670001654 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 339670001655 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 339670001656 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 339670001657 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670001658 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670001659 Type II/IV secretion system protein; Region: T2SE; pfam00437 339670001660 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 339670001661 Walker A motif; other site 339670001662 ATP binding site [chemical binding]; other site 339670001663 Walker B motif; other site 339670001664 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 339670001665 Domain of unknown function DUF21; Region: DUF21; pfam01595 339670001666 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 339670001667 Transporter associated domain; Region: CorC_HlyC; smart01091 339670001668 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 339670001669 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 339670001670 substrate binding pocket [chemical binding]; other site 339670001671 chain length determination region; other site 339670001672 substrate-Mg2+ binding site; other site 339670001673 catalytic residues [active] 339670001674 aspartate-rich region 1; other site 339670001675 active site lid residues [active] 339670001676 aspartate-rich region 2; other site 339670001677 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 339670001678 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 339670001679 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 339670001680 GTPase CgtA; Reviewed; Region: obgE; PRK12299 339670001681 GTP1/OBG; Region: GTP1_OBG; pfam01018 339670001682 Obg GTPase; Region: Obg; cd01898 339670001683 G1 box; other site 339670001684 GTP/Mg2+ binding site [chemical binding]; other site 339670001685 Switch I region; other site 339670001686 G2 box; other site 339670001687 G3 box; other site 339670001688 Switch II region; other site 339670001689 G4 box; other site 339670001690 G5 box; other site 339670001691 gamma-glutamyl kinase; Provisional; Region: PRK05429 339670001692 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 339670001693 nucleotide binding site [chemical binding]; other site 339670001694 homotetrameric interface [polypeptide binding]; other site 339670001695 putative phosphate binding site [ion binding]; other site 339670001696 putative allosteric binding site; other site 339670001697 PUA domain; Region: PUA; pfam01472 339670001698 CNP1-like family; Region: CNP1; pfam08750 339670001699 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 339670001700 putative active site [active] 339670001701 Ap4A binding site [chemical binding]; other site 339670001702 nudix motif; other site 339670001703 putative metal binding site [ion binding]; other site 339670001704 prolyl-tRNA synthetase; Provisional; Region: PRK09194 339670001705 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 339670001706 dimer interface [polypeptide binding]; other site 339670001707 motif 1; other site 339670001708 active site 339670001709 motif 2; other site 339670001710 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 339670001711 putative deacylase active site [active] 339670001712 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 339670001713 active site 339670001714 motif 3; other site 339670001715 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 339670001716 anticodon binding site; other site 339670001717 MarC family integral membrane protein; Region: MarC; cl00919 339670001718 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670001719 active site 339670001720 signal recognition particle protein; Provisional; Region: PRK10867 339670001721 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 339670001722 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 339670001723 P loop; other site 339670001724 GTP binding site [chemical binding]; other site 339670001725 Signal peptide binding domain; Region: SRP_SPB; pfam02978 339670001726 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 339670001727 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 339670001728 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 339670001729 amidase catalytic site [active] 339670001730 Zn binding residues [ion binding]; other site 339670001731 substrate binding site [chemical binding]; other site 339670001732 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 339670001733 ATP cone domain; Region: ATP-cone; pfam03477 339670001734 Class I ribonucleotide reductase; Region: RNR_I; cd01679 339670001735 active site 339670001736 dimer interface [polypeptide binding]; other site 339670001737 catalytic residues [active] 339670001738 effector binding site; other site 339670001739 R2 peptide binding site; other site 339670001740 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 339670001741 dimer interface [polypeptide binding]; other site 339670001742 putative radical transfer pathway; other site 339670001743 diiron center [ion binding]; other site 339670001744 tyrosyl radical; other site 339670001745 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 339670001746 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 339670001747 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670001748 substrate binding site [chemical binding]; other site 339670001749 ATP binding site [chemical binding]; other site 339670001750 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 339670001751 dimer interface [polypeptide binding]; other site 339670001752 catalytic triad [active] 339670001753 peroxidatic and resolving cysteines [active] 339670001754 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 339670001755 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 339670001756 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 339670001757 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 339670001758 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670001759 S-adenosylmethionine binding site [chemical binding]; other site 339670001760 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 339670001761 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 339670001762 ATP-grasp domain; Region: ATP-grasp_4; cl17255 339670001763 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 339670001764 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 339670001765 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 339670001766 carboxyltransferase (CT) interaction site; other site 339670001767 biotinylation site [posttranslational modification]; other site 339670001768 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 339670001769 Dehydroquinase class II; Region: DHquinase_II; pfam01220 339670001770 active site 339670001771 trimer interface [polypeptide binding]; other site 339670001772 dimer interface [polypeptide binding]; other site 339670001773 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 339670001774 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670001775 catalytic residues [active] 339670001776 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 339670001777 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 339670001778 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 339670001779 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 339670001780 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 339670001781 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 339670001782 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 339670001783 RNB domain; Region: RNB; pfam00773 339670001784 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 339670001785 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 339670001786 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 339670001787 shikimate binding site; other site 339670001788 NAD(P) binding site [chemical binding]; other site 339670001789 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 339670001790 Transglycosylase; Region: Transgly; cl17702 339670001791 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 339670001792 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 339670001793 EF-hand domain pair; Region: EF_hand_5; pfam13499 339670001794 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670001795 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670001796 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670001797 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 339670001798 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 339670001799 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 339670001800 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 339670001801 active site 339670001802 intersubunit interface [polypeptide binding]; other site 339670001803 catalytic residue [active] 339670001804 short chain dehydrogenase; Provisional; Region: PRK07063 339670001805 classical (c) SDRs; Region: SDR_c; cd05233 339670001806 NAD(P) binding site [chemical binding]; other site 339670001807 active site 339670001808 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 339670001809 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 339670001810 ligand binding site [chemical binding]; other site 339670001811 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 339670001812 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670001813 Walker A/P-loop; other site 339670001814 ATP binding site [chemical binding]; other site 339670001815 Q-loop/lid; other site 339670001816 ABC transporter signature motif; other site 339670001817 Walker B; other site 339670001818 D-loop; other site 339670001819 H-loop/switch region; other site 339670001820 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670001821 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670001822 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670001823 TM-ABC transporter signature motif; other site 339670001824 short chain dehydrogenase; Provisional; Region: PRK12939 339670001825 classical (c) SDRs; Region: SDR_c; cd05233 339670001826 NAD(P) binding site [chemical binding]; other site 339670001827 active site 339670001828 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 339670001829 active site 339670001830 catalytic residues [active] 339670001831 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 339670001832 active site 339670001833 dimer interface [polypeptide binding]; other site 339670001834 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 339670001835 Competence-damaged protein; Region: CinA; pfam02464 339670001836 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 339670001837 tetramer interfaces [polypeptide binding]; other site 339670001838 binuclear metal-binding site [ion binding]; other site 339670001839 thiamine monophosphate kinase; Provisional; Region: PRK05731 339670001840 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 339670001841 ATP binding site [chemical binding]; other site 339670001842 dimerization interface [polypeptide binding]; other site 339670001843 malic enzyme; Reviewed; Region: PRK12862 339670001844 Malic enzyme, N-terminal domain; Region: malic; pfam00390 339670001845 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 339670001846 putative NAD(P) binding site [chemical binding]; other site 339670001847 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 339670001848 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 339670001849 active site 339670001850 barstar interaction site; other site 339670001851 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 339670001852 putative RNAase interaction site [polypeptide binding]; other site 339670001853 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 339670001854 RNA methyltransferase, RsmE family; Region: TIGR00046 339670001855 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 339670001856 putative dimer interface [polypeptide binding]; other site 339670001857 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670001858 spermidine synthase; Provisional; Region: PRK00811 339670001859 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670001860 transketolase; Reviewed; Region: PRK12753 339670001861 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 339670001862 TPP-binding site [chemical binding]; other site 339670001863 dimer interface [polypeptide binding]; other site 339670001864 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 339670001865 PYR/PP interface [polypeptide binding]; other site 339670001866 dimer interface [polypeptide binding]; other site 339670001867 TPP binding site [chemical binding]; other site 339670001868 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 339670001869 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 339670001870 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 339670001871 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 339670001872 Transcriptional regulators [Transcription]; Region: FadR; COG2186 339670001873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670001874 DNA-binding site [nucleotide binding]; DNA binding site 339670001875 FCD domain; Region: FCD; pfam07729 339670001876 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 339670001877 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670001878 allantoicase; Provisional; Region: PRK13257 339670001879 Allantoicase repeat; Region: Allantoicase; pfam03561 339670001880 Allantoicase repeat; Region: Allantoicase; pfam03561 339670001881 ureidoglycolate hydrolase; Provisional; Region: PRK13395 339670001882 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 339670001883 ferric uptake regulator; Provisional; Region: fur; PRK09462 339670001884 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 339670001885 metal binding site 2 [ion binding]; metal-binding site 339670001886 putative DNA binding helix; other site 339670001887 metal binding site 1 [ion binding]; metal-binding site 339670001888 dimer interface [polypeptide binding]; other site 339670001889 structural Zn2+ binding site [ion binding]; other site 339670001890 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 339670001891 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 339670001892 dihydrodipicolinate reductase; Provisional; Region: PRK00048 339670001893 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 339670001894 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 339670001895 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 339670001896 TolR protein; Region: tolR; TIGR02801 339670001897 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 339670001898 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 339670001899 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 339670001900 HIGH motif; other site 339670001901 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 339670001902 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 339670001903 active site 339670001904 KMSKS motif; other site 339670001905 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 339670001906 tRNA binding surface [nucleotide binding]; other site 339670001907 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 339670001908 Lipopolysaccharide-assembly; Region: LptE; cl01125 339670001909 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 339670001910 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 339670001911 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 339670001912 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 339670001913 putative catalytic cysteine [active] 339670001914 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 339670001915 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 339670001916 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 339670001917 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 339670001918 putative active site [active] 339670001919 phosphogluconate dehydratase; Validated; Region: PRK09054 339670001920 6-phosphogluconate dehydratase; Region: edd; TIGR01196 339670001921 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 339670001922 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 339670001923 active site 339670001924 intersubunit interface [polypeptide binding]; other site 339670001925 catalytic residue [active] 339670001926 GntP family permease; Region: GntP_permease; pfam02447 339670001927 fructuronate transporter; Provisional; Region: PRK10034; cl15264 339670001928 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 339670001929 ATP-binding site [chemical binding]; other site 339670001930 Gluconate-6-phosphate binding site [chemical binding]; other site 339670001931 Shikimate kinase; Region: SKI; pfam01202 339670001932 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 339670001933 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670001934 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670001935 adenylosuccinate lyase; Provisional; Region: PRK09285 339670001936 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 339670001937 tetramer interface [polypeptide binding]; other site 339670001938 active site 339670001939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670001940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670001941 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670001942 dimerization interface [polypeptide binding]; other site 339670001943 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 339670001944 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 339670001945 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 339670001946 NAD(P) binding site [chemical binding]; other site 339670001947 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 339670001948 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670001949 substrate binding pocket [chemical binding]; other site 339670001950 membrane-bound complex binding site; other site 339670001951 hinge residues; other site 339670001952 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670001953 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670001954 dimer interface [polypeptide binding]; other site 339670001955 conserved gate region; other site 339670001956 putative PBP binding loops; other site 339670001957 ABC-ATPase subunit interface; other site 339670001958 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670001959 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670001960 dimer interface [polypeptide binding]; other site 339670001961 conserved gate region; other site 339670001962 putative PBP binding loops; other site 339670001963 ABC-ATPase subunit interface; other site 339670001964 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 339670001965 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670001966 Walker A/P-loop; other site 339670001967 ATP binding site [chemical binding]; other site 339670001968 Q-loop/lid; other site 339670001969 ABC transporter signature motif; other site 339670001970 Walker B; other site 339670001971 D-loop; other site 339670001972 H-loop/switch region; other site 339670001973 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 339670001974 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 339670001975 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 339670001976 Autotransporter beta-domain; Region: Autotransporter; smart00869 339670001977 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 339670001978 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 339670001979 putative active site [active] 339670001980 putative dimer interface [polypeptide binding]; other site 339670001981 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 339670001982 active site 339670001983 substrate binding pocket [chemical binding]; other site 339670001984 dimer interface [polypeptide binding]; other site 339670001985 OsmC-like protein; Region: OsmC; cl00767 339670001986 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 339670001987 23S rRNA interface [nucleotide binding]; other site 339670001988 L3 interface [polypeptide binding]; other site 339670001989 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 339670001990 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 339670001991 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 339670001992 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 339670001993 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 339670001994 active site 339670001995 HIGH motif; other site 339670001996 dimer interface [polypeptide binding]; other site 339670001997 KMSKS motif; other site 339670001998 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 339670001999 RNA binding surface [nucleotide binding]; other site 339670002000 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 339670002001 putative active site [active] 339670002002 dimerization interface [polypeptide binding]; other site 339670002003 putative tRNAtyr binding site [nucleotide binding]; other site 339670002004 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 339670002005 catalytic core [active] 339670002006 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 339670002007 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 339670002008 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670002009 Walker A motif; other site 339670002010 ATP binding site [chemical binding]; other site 339670002011 Walker B motif; other site 339670002012 arginine finger; other site 339670002013 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 339670002014 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 339670002015 RuvA N terminal domain; Region: RuvA_N; pfam01330 339670002016 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 339670002017 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 339670002018 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 339670002019 active site 339670002020 putative DNA-binding cleft [nucleotide binding]; other site 339670002021 dimer interface [polypeptide binding]; other site 339670002022 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 339670002023 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 339670002024 purine monophosphate binding site [chemical binding]; other site 339670002025 dimer interface [polypeptide binding]; other site 339670002026 putative catalytic residues [active] 339670002027 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 339670002028 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 339670002029 DNA-binding protein Fis; Provisional; Region: PRK01905 339670002030 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 339670002031 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 339670002032 FMN binding site [chemical binding]; other site 339670002033 active site 339670002034 catalytic residues [active] 339670002035 substrate binding site [chemical binding]; other site 339670002036 hypothetical protein; Provisional; Region: PRK06996 339670002037 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670002038 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 339670002039 proline aminopeptidase P II; Provisional; Region: PRK10879 339670002040 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 339670002041 active site 339670002042 putative glutathione S-transferase; Provisional; Region: PRK10357 339670002043 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 339670002044 putative C-terminal domain interface [polypeptide binding]; other site 339670002045 putative GSH binding site (G-site) [chemical binding]; other site 339670002046 putative dimer interface [polypeptide binding]; other site 339670002047 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 339670002048 dimer interface [polypeptide binding]; other site 339670002049 N-terminal domain interface [polypeptide binding]; other site 339670002050 putative substrate binding pocket (H-site) [chemical binding]; other site 339670002051 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 339670002052 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 339670002053 active site 339670002054 FMN binding site [chemical binding]; other site 339670002055 substrate binding site [chemical binding]; other site 339670002056 3Fe-4S cluster binding site [ion binding]; other site 339670002057 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 339670002058 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 339670002059 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 339670002060 nudix motif; other site 339670002061 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670002062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670002063 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670002064 dimerization interface [polypeptide binding]; other site 339670002065 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 339670002066 Predicted amidohydrolase [General function prediction only]; Region: COG0388 339670002067 putative active site [active] 339670002068 catalytic triad [active] 339670002069 putative dimer interface [polypeptide binding]; other site 339670002070 Predicted transcriptional regulator [Transcription]; Region: COG2378 339670002071 HTH domain; Region: HTH_11; pfam08279 339670002072 WYL domain; Region: WYL; pfam13280 339670002073 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 339670002074 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670002075 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 339670002076 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 339670002077 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 339670002078 Site-specific recombinase; Region: SpecificRecomb; pfam10136 339670002079 Protein of unknown function (DUF330); Region: DUF330; pfam03886 339670002080 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 339670002081 mce related protein; Region: MCE; pfam02470 339670002082 mce related protein; Region: MCE; pfam02470 339670002083 Paraquat-inducible protein A; Region: PqiA; pfam04403 339670002084 Paraquat-inducible protein A; Region: PqiA; pfam04403 339670002085 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 339670002086 YceI-like domain; Region: YceI; smart00867 339670002087 Uncharacterized conserved protein [Function unknown]; Region: COG2353 339670002088 citrate-proton symporter; Provisional; Region: PRK15075 339670002089 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670002090 putative substrate translocation pore; other site 339670002091 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 339670002092 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 339670002093 Protein export membrane protein; Region: SecD_SecF; pfam02355 339670002094 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 339670002095 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 339670002096 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 339670002097 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 339670002098 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 339670002099 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 339670002100 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 339670002101 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 339670002102 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 339670002103 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 339670002104 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 339670002105 ssDNA binding site; other site 339670002106 generic binding surface II; other site 339670002107 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 339670002108 ATP binding site [chemical binding]; other site 339670002109 putative Mg++ binding site [ion binding]; other site 339670002110 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670002111 nucleotide binding region [chemical binding]; other site 339670002112 ATP-binding site [chemical binding]; other site 339670002113 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670002114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670002115 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 339670002116 dimerization interface [polypeptide binding]; other site 339670002117 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 339670002118 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 339670002119 dimer interface [polypeptide binding]; other site 339670002120 active site 339670002121 heme binding site [chemical binding]; other site 339670002122 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 339670002123 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 339670002124 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 339670002125 dimerization interface [polypeptide binding]; other site 339670002126 DPS ferroxidase diiron center [ion binding]; other site 339670002127 ion pore; other site 339670002128 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 339670002129 UbiA prenyltransferase family; Region: UbiA; pfam01040 339670002130 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 339670002131 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 339670002132 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 339670002133 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 339670002134 catalytic residue [active] 339670002135 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 339670002136 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 339670002137 Cysteine-rich domain; Region: CCG; pfam02754 339670002138 Cysteine-rich domain; Region: CCG; pfam02754 339670002139 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 339670002140 FAD binding domain; Region: FAD_binding_4; pfam01565 339670002141 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 339670002142 FAD binding domain; Region: FAD_binding_4; pfam01565 339670002143 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 339670002144 FAD binding domain; Region: FAD_binding_4; pfam01565 339670002145 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 339670002146 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 339670002147 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 339670002148 heme-binding site [chemical binding]; other site 339670002149 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 339670002150 FAD binding pocket [chemical binding]; other site 339670002151 FAD binding motif [chemical binding]; other site 339670002152 phosphate binding motif [ion binding]; other site 339670002153 beta-alpha-beta structure motif; other site 339670002154 NAD binding pocket [chemical binding]; other site 339670002155 Heme binding pocket [chemical binding]; other site 339670002156 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 339670002157 putative active site [active] 339670002158 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 339670002159 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 339670002160 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 339670002161 protease TldD; Provisional; Region: tldD; PRK10735 339670002162 nitrilase; Region: PLN02798 339670002163 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 339670002164 putative active site [active] 339670002165 catalytic triad [active] 339670002166 dimer interface [polypeptide binding]; other site 339670002167 TIGR02099 family protein; Region: TIGR02099 339670002168 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 339670002169 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 339670002170 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 339670002171 metal binding triad; other site 339670002172 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 339670002173 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 339670002174 metal binding triad; other site 339670002175 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 339670002176 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 339670002177 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 339670002178 aromatic chitin/cellulose binding site residues [chemical binding]; other site 339670002179 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 339670002180 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 339670002181 Walker A/P-loop; other site 339670002182 ATP binding site [chemical binding]; other site 339670002183 Q-loop/lid; other site 339670002184 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 339670002185 ABC transporter signature motif; other site 339670002186 Walker B; other site 339670002187 D-loop; other site 339670002188 H-loop/switch region; other site 339670002189 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 339670002190 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 339670002191 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 339670002192 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 339670002193 ferrochelatase; Reviewed; Region: hemH; PRK00035 339670002194 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 339670002195 C-terminal domain interface [polypeptide binding]; other site 339670002196 active site 339670002197 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 339670002198 active site 339670002199 N-terminal domain interface [polypeptide binding]; other site 339670002200 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 339670002201 RNA binding surface [nucleotide binding]; other site 339670002202 GrpE; Region: GrpE; pfam01025 339670002203 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 339670002204 dimer interface [polypeptide binding]; other site 339670002205 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 339670002206 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 339670002207 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 339670002208 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 339670002209 nucleotide binding site [chemical binding]; other site 339670002210 chaperone protein DnaJ; Provisional; Region: PRK10767 339670002211 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 339670002212 HSP70 interaction site [polypeptide binding]; other site 339670002213 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 339670002214 Zn binding sites [ion binding]; other site 339670002215 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 339670002216 dimer interface [polypeptide binding]; other site 339670002217 chorismate binding enzyme; Region: Chorismate_bind; cl10555 339670002218 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 339670002219 hypothetical protein; Provisional; Region: PRK07546 339670002220 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 339670002221 homodimer interface [polypeptide binding]; other site 339670002222 substrate-cofactor binding pocket; other site 339670002223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670002224 catalytic residue [active] 339670002225 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 339670002226 oligomerization interface [polypeptide binding]; other site 339670002227 active site 339670002228 metal binding site [ion binding]; metal-binding site 339670002229 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 339670002230 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 339670002231 Substrate-binding site [chemical binding]; other site 339670002232 Substrate specificity [chemical binding]; other site 339670002233 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 339670002234 catalytic center binding site [active] 339670002235 ATP binding site [chemical binding]; other site 339670002236 poly(A) polymerase; Region: pcnB; TIGR01942 339670002237 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 339670002238 active site 339670002239 NTP binding site [chemical binding]; other site 339670002240 metal binding triad [ion binding]; metal-binding site 339670002241 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 339670002242 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 339670002243 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 339670002244 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 339670002245 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 339670002246 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 339670002247 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 339670002248 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 339670002249 dimerization interface [polypeptide binding]; other site 339670002250 putative ATP binding site [chemical binding]; other site 339670002251 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 339670002252 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670002253 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670002254 putative substrate translocation pore; other site 339670002255 tetracycline repressor protein TetR; Provisional; Region: PRK13756 339670002256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670002257 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 339670002258 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 339670002259 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 339670002260 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 339670002261 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670002262 ATP binding site [chemical binding]; other site 339670002263 Mg2+ binding site [ion binding]; other site 339670002264 G-X-G motif; other site 339670002265 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 339670002266 ATP binding site [chemical binding]; other site 339670002267 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 339670002268 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 339670002269 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 339670002270 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 339670002271 Mechanosensitive ion channel; Region: MS_channel; pfam00924 339670002272 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 339670002273 ligand-binding site [chemical binding]; other site 339670002274 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 339670002275 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 339670002276 putative active site [active] 339670002277 putative dimer interface [polypeptide binding]; other site 339670002278 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 339670002279 Cupin; Region: Cupin_6; pfam12852 339670002280 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670002281 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670002282 Predicted membrane protein [Function unknown]; Region: COG4682 339670002283 yiaA/B two helix domain; Region: YiaAB; pfam05360 339670002284 yiaA/B two helix domain; Region: YiaAB; pfam05360 339670002285 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 339670002286 active site 339670002287 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 339670002288 dinuclear metal binding motif [ion binding]; other site 339670002289 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 339670002290 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 339670002291 active site 339670002292 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 339670002293 Fatty acid desaturase; Region: FA_desaturase; pfam00487 339670002294 putative di-iron ligands [ion binding]; other site 339670002295 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 339670002296 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 339670002297 Tetratricopeptide repeat; Region: TPR_6; pfam13174 339670002298 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 339670002299 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670002300 ligand binding site [chemical binding]; other site 339670002301 translocation protein TolB; Provisional; Region: tolB; PRK02889 339670002302 TolB amino-terminal domain; Region: TolB_N; pfam04052 339670002303 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 339670002304 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 339670002305 TolA protein; Region: tolA_full; TIGR02794 339670002306 TonB C terminal; Region: TonB_2; pfam13103 339670002307 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 339670002308 TolR protein; Region: tolR; TIGR02801 339670002309 TolQ protein; Region: tolQ; TIGR02796 339670002310 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 339670002311 active site 339670002312 malonic semialdehyde reductase; Provisional; Region: PRK10538 339670002313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670002314 NAD(P) binding site [chemical binding]; other site 339670002315 active site 339670002316 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 339670002317 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 339670002318 dimer interface [polypeptide binding]; other site 339670002319 active site 339670002320 glycine-pyridoxal phosphate binding site [chemical binding]; other site 339670002321 folate binding site [chemical binding]; other site 339670002322 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 339670002323 ATP cone domain; Region: ATP-cone; pfam03477 339670002324 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 339670002325 Type II transport protein GspH; Region: GspH; pfam12019 339670002326 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 339670002327 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 339670002328 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 339670002329 Predicted membrane protein [Function unknown]; Region: COG5393 339670002330 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 339670002331 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 339670002332 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 339670002333 dimer interface [polypeptide binding]; other site 339670002334 decamer (pentamer of dimers) interface [polypeptide binding]; other site 339670002335 catalytic triad [active] 339670002336 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 339670002337 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670002338 FAD binding site [chemical binding]; other site 339670002339 substrate binding pocket [chemical binding]; other site 339670002340 catalytic base [active] 339670002341 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670002342 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670002343 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670002344 Uncharacterized conserved protein [Function unknown]; Region: COG3791 339670002345 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 339670002346 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 339670002347 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670002348 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670002349 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 339670002350 benzoate transport; Region: 2A0115; TIGR00895 339670002351 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670002352 putative substrate translocation pore; other site 339670002353 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670002354 putative substrate translocation pore; other site 339670002355 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 339670002356 fumarylacetoacetase; Region: PLN02856 339670002357 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 339670002358 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 339670002359 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670002360 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 339670002361 putative FMN binding site [chemical binding]; other site 339670002362 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 339670002363 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 339670002364 putative ligand binding site [chemical binding]; other site 339670002365 putative NAD binding site [chemical binding]; other site 339670002366 catalytic site [active] 339670002367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670002368 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670002369 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670002370 putative effector binding pocket; other site 339670002371 dimerization interface [polypeptide binding]; other site 339670002372 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 339670002373 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670002374 catalytic residue [active] 339670002375 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670002376 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670002377 EamA-like transporter family; Region: EamA; pfam00892 339670002378 EamA-like transporter family; Region: EamA; pfam00892 339670002379 major facilitator superfamily transporter; Provisional; Region: PRK05122 339670002380 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 339670002381 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670002382 catalytic loop [active] 339670002383 iron binding site [ion binding]; other site 339670002384 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670002385 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 339670002386 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 339670002387 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 339670002388 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670002389 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 339670002390 XdhC Rossmann domain; Region: XdhC_C; pfam13478 339670002391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 339670002392 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670002393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670002394 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670002395 dimerization interface [polypeptide binding]; other site 339670002396 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 339670002397 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 339670002398 putative catalytic residue [active] 339670002399 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 339670002400 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 339670002401 BON domain; Region: BON; pfam04972 339670002402 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 339670002403 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 339670002404 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 339670002405 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 339670002406 catalytic residues [active] 339670002407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 339670002408 YheO-like PAS domain; Region: PAS_6; pfam08348 339670002409 HTH domain; Region: HTH_22; pfam13309 339670002410 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 339670002411 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 339670002412 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670002413 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670002414 substrate binding pocket [chemical binding]; other site 339670002415 membrane-bound complex binding site; other site 339670002416 hinge residues; other site 339670002417 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670002418 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670002419 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670002420 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 339670002421 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 339670002422 RNA polymerase sigma factor; Provisional; Region: PRK12511 339670002423 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670002424 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670002425 DNA binding residues [nucleotide binding] 339670002426 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 339670002427 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 339670002428 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 339670002429 putative hydrophobic ligand binding site [chemical binding]; other site 339670002430 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 339670002431 oligomerisation interface [polypeptide binding]; other site 339670002432 mobile loop; other site 339670002433 roof hairpin; other site 339670002434 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 339670002435 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 339670002436 ring oligomerisation interface [polypeptide binding]; other site 339670002437 ATP/Mg binding site [chemical binding]; other site 339670002438 stacking interactions; other site 339670002439 hinge regions; other site 339670002440 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 339670002441 dimer interface [polypeptide binding]; other site 339670002442 substrate binding site [chemical binding]; other site 339670002443 ATP binding site [chemical binding]; other site 339670002444 Rubredoxin [Energy production and conversion]; Region: COG1773 339670002445 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 339670002446 iron binding site [ion binding]; other site 339670002447 hypothetical protein; Validated; Region: PRK00228 339670002448 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 339670002449 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670002450 active site 339670002451 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 339670002452 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 339670002453 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 339670002454 dihydroorotase; Provisional; Region: PRK07627 339670002455 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 339670002456 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 339670002457 active site 339670002458 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 339670002459 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 339670002460 putative acyl-acceptor binding pocket; other site 339670002461 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 339670002462 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 339670002463 active site 339670002464 metal binding site [ion binding]; metal-binding site 339670002465 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 339670002466 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 339670002467 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 339670002468 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 339670002469 Walker A/P-loop; other site 339670002470 ATP binding site [chemical binding]; other site 339670002471 Q-loop/lid; other site 339670002472 ABC transporter signature motif; other site 339670002473 Walker B; other site 339670002474 D-loop; other site 339670002475 H-loop/switch region; other site 339670002476 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 339670002477 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 339670002478 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 339670002479 NADP binding site [chemical binding]; other site 339670002480 active site 339670002481 putative substrate binding site [chemical binding]; other site 339670002482 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 339670002483 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670002484 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670002485 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 339670002486 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 339670002487 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 339670002488 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 339670002489 NAD binding site [chemical binding]; other site 339670002490 substrate binding site [chemical binding]; other site 339670002491 homodimer interface [polypeptide binding]; other site 339670002492 active site 339670002493 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 339670002494 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 339670002495 substrate binding site; other site 339670002496 tetramer interface; other site 339670002497 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 339670002498 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 339670002499 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 339670002500 NADP binding site [chemical binding]; other site 339670002501 active site 339670002502 putative substrate binding site [chemical binding]; other site 339670002503 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 339670002504 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 339670002505 Substrate binding site; other site 339670002506 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 339670002507 Methyltransferase domain; Region: Methyltransf_23; pfam13489 339670002508 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670002509 S-adenosylmethionine binding site [chemical binding]; other site 339670002510 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 339670002511 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670002512 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 339670002513 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670002514 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 339670002515 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670002516 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 339670002517 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 339670002518 NADP-binding site; other site 339670002519 homotetramer interface [polypeptide binding]; other site 339670002520 substrate binding site [chemical binding]; other site 339670002521 homodimer interface [polypeptide binding]; other site 339670002522 active site 339670002523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670002524 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 339670002525 NAD(P) binding site [chemical binding]; other site 339670002526 active site 339670002527 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 339670002528 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670002529 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 339670002530 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 339670002531 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670002532 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 339670002533 putative NAD(P) binding site [chemical binding]; other site 339670002534 active site 339670002535 putative substrate binding site [chemical binding]; other site 339670002536 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 339670002537 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 339670002538 Mg++ binding site [ion binding]; other site 339670002539 putative catalytic motif [active] 339670002540 putative substrate binding site [chemical binding]; other site 339670002541 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 339670002542 CoA binding domain; Region: CoA_binding; cl17356 339670002543 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 339670002544 NAD(P) binding site [chemical binding]; other site 339670002545 homodimer interface [polypeptide binding]; other site 339670002546 substrate binding site [chemical binding]; other site 339670002547 active site 339670002548 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 339670002549 peptidase domain interface [polypeptide binding]; other site 339670002550 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 339670002551 active site 339670002552 catalytic triad [active] 339670002553 calcium binding site [ion binding]; other site 339670002554 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 339670002555 dimerization interface [polypeptide binding]; other site 339670002556 D-mannose binding lectin; Region: B_lectin; pfam01453 339670002557 mannose binding site [chemical binding]; other site 339670002558 Bulb-type mannose-specific lectin. The domain contains a three-fold internal repeat (beta-prism architecture). The consensus sequence motif QXDXNXVXY is involved in alpha-D-mannose recognition. Lectins are carbohydrate-binding proteins which specifically...; Region: B_lectin; cd00028 339670002559 dimerization interface [polypeptide binding]; other site 339670002560 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 339670002561 mannose binding site [chemical binding]; other site 339670002562 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 339670002563 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 339670002564 Mg++ binding site [ion binding]; other site 339670002565 putative catalytic motif [active] 339670002566 UDP-glucose 4-epimerase; Region: PLN02240 339670002567 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 339670002568 NAD binding site [chemical binding]; other site 339670002569 homodimer interface [polypeptide binding]; other site 339670002570 active site 339670002571 substrate binding site [chemical binding]; other site 339670002572 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 339670002573 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670002574 putative ADP-binding pocket [chemical binding]; other site 339670002575 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 339670002576 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 339670002577 active site 339670002578 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 339670002579 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 339670002580 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 339670002581 active site 339670002582 substrate binding site [chemical binding]; other site 339670002583 metal binding site [ion binding]; metal-binding site 339670002584 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 339670002585 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 339670002586 putative active site [active] 339670002587 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 339670002588 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 339670002589 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 339670002590 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670002591 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 339670002592 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 339670002593 UreF; Region: UreF; pfam01730 339670002594 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 339670002595 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 339670002596 dimer interface [polypeptide binding]; other site 339670002597 catalytic residues [active] 339670002598 urease subunit alpha; Reviewed; Region: ureC; PRK13207 339670002599 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 339670002600 subunit interactions [polypeptide binding]; other site 339670002601 active site 339670002602 flap region; other site 339670002603 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 339670002604 gamma-beta subunit interface [polypeptide binding]; other site 339670002605 alpha-beta subunit interface [polypeptide binding]; other site 339670002606 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 339670002607 alpha-gamma subunit interface [polypeptide binding]; other site 339670002608 beta-gamma subunit interface [polypeptide binding]; other site 339670002609 UreD urease accessory protein; Region: UreD; cl00530 339670002610 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 339670002611 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 339670002612 Walker A/P-loop; other site 339670002613 ATP binding site [chemical binding]; other site 339670002614 Q-loop/lid; other site 339670002615 ABC transporter signature motif; other site 339670002616 Walker B; other site 339670002617 D-loop; other site 339670002618 H-loop/switch region; other site 339670002619 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 339670002620 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 339670002621 Walker A/P-loop; other site 339670002622 ATP binding site [chemical binding]; other site 339670002623 Q-loop/lid; other site 339670002624 ABC transporter signature motif; other site 339670002625 Walker B; other site 339670002626 D-loop; other site 339670002627 H-loop/switch region; other site 339670002628 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 339670002629 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 339670002630 TM-ABC transporter signature motif; other site 339670002631 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 339670002632 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670002633 TM-ABC transporter signature motif; other site 339670002634 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 339670002635 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 339670002636 putative ligand binding site [chemical binding]; other site 339670002637 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 339670002638 active site residue [active] 339670002639 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 339670002640 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670002641 S-adenosylmethionine binding site [chemical binding]; other site 339670002642 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 339670002643 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670002644 FeS/SAM binding site; other site 339670002645 HemN C-terminal domain; Region: HemN_C; pfam06969 339670002646 Flagellin N-methylase; Region: FliB; pfam03692 339670002647 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 339670002648 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670002649 S-adenosylmethionine binding site [chemical binding]; other site 339670002650 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 339670002651 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 339670002652 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 339670002653 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 339670002654 metal binding site [ion binding]; metal-binding site 339670002655 substrate binding pocket [chemical binding]; other site 339670002656 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 339670002657 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670002658 DNA-binding site [nucleotide binding]; DNA binding site 339670002659 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 339670002660 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 339670002661 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 339670002662 dimer interface [polypeptide binding]; other site 339670002663 ADP-ribose binding site [chemical binding]; other site 339670002664 active site 339670002665 nudix motif; other site 339670002666 metal binding site [ion binding]; metal-binding site 339670002667 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 339670002668 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 339670002669 active site 339670002670 catalytic triad [active] 339670002671 calcium binding site [ion binding]; other site 339670002672 chromosome condensation membrane protein; Provisional; Region: PRK14196 339670002673 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 339670002674 YGGT family; Region: YGGT; pfam02325 339670002675 YGGT family; Region: YGGT; pfam02325 339670002676 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 339670002677 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 339670002678 LysE type translocator; Region: LysE; cl00565 339670002679 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 339670002680 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 339670002681 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670002682 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670002683 catalytic residue [active] 339670002684 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 339670002685 Transposase; Region: HTH_Tnp_1; cl17663 339670002686 Helix-turn-helix domain; Region: HTH_28; pfam13518 339670002687 putative transposase OrfB; Reviewed; Region: PHA02517 339670002688 HTH-like domain; Region: HTH_21; pfam13276 339670002689 Integrase core domain; Region: rve; pfam00665 339670002690 Integrase core domain; Region: rve_2; pfam13333 339670002691 aminotransferase; Validated; Region: PRK07337 339670002692 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670002693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670002694 homodimer interface [polypeptide binding]; other site 339670002695 catalytic residue [active] 339670002696 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 339670002697 putative RNA binding site [nucleotide binding]; other site 339670002698 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 339670002699 homopentamer interface [polypeptide binding]; other site 339670002700 active site 339670002701 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 339670002702 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 339670002703 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 339670002704 dimerization interface [polypeptide binding]; other site 339670002705 active site 339670002706 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 339670002707 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 339670002708 Lumazine binding domain; Region: Lum_binding; pfam00677 339670002709 Lumazine binding domain; Region: Lum_binding; pfam00677 339670002710 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 339670002711 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 339670002712 catalytic motif [active] 339670002713 Zn binding site [ion binding]; other site 339670002714 RibD C-terminal domain; Region: RibD_C; cl17279 339670002715 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 339670002716 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670002717 inhibitor-cofactor binding pocket; inhibition site 339670002718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670002719 catalytic residue [active] 339670002720 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 339670002721 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670002722 putative substrate translocation pore; other site 339670002723 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 339670002724 glucokinase; Provisional; Region: glk; PRK00292 339670002725 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 339670002726 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 339670002727 putative active site [active] 339670002728 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 339670002729 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 339670002730 putative active site [active] 339670002731 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 339670002732 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 339670002733 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 339670002734 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 339670002735 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 339670002736 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670002737 dimer interface [polypeptide binding]; other site 339670002738 conserved gate region; other site 339670002739 putative PBP binding loops; other site 339670002740 ABC-ATPase subunit interface; other site 339670002741 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 339670002742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670002743 dimer interface [polypeptide binding]; other site 339670002744 conserved gate region; other site 339670002745 putative PBP binding loops; other site 339670002746 ABC-ATPase subunit interface; other site 339670002747 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 339670002748 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 339670002749 Walker A/P-loop; other site 339670002750 ATP binding site [chemical binding]; other site 339670002751 Q-loop/lid; other site 339670002752 ABC transporter signature motif; other site 339670002753 Walker B; other site 339670002754 D-loop; other site 339670002755 H-loop/switch region; other site 339670002756 TOBE domain; Region: TOBE_2; pfam08402 339670002757 Predicted membrane protein [Function unknown]; Region: COG2860 339670002758 UPF0126 domain; Region: UPF0126; pfam03458 339670002759 UPF0126 domain; Region: UPF0126; pfam03458 339670002760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 339670002761 Smr domain; Region: Smr; pfam01713 339670002762 thioredoxin reductase; Provisional; Region: PRK10262 339670002763 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670002764 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670002765 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 339670002766 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 339670002767 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 339670002768 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 339670002769 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 339670002770 recombination factor protein RarA; Reviewed; Region: PRK13342 339670002771 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670002772 Walker A motif; other site 339670002773 ATP binding site [chemical binding]; other site 339670002774 Walker B motif; other site 339670002775 arginine finger; other site 339670002776 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 339670002777 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 339670002778 seryl-tRNA synthetase; Provisional; Region: PRK05431 339670002779 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 339670002780 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 339670002781 dimer interface [polypeptide binding]; other site 339670002782 active site 339670002783 motif 1; other site 339670002784 motif 2; other site 339670002785 motif 3; other site 339670002786 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 339670002787 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 339670002788 Fatty acid desaturase; Region: FA_desaturase; pfam00487 339670002789 Di-iron ligands [ion binding]; other site 339670002790 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670002791 septum formation inhibitor; Reviewed; Region: PRK01973 339670002792 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 339670002793 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 339670002794 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 339670002795 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 339670002796 Switch I; other site 339670002797 Switch II; other site 339670002798 cell division topological specificity factor MinE; Provisional; Region: PRK13989 339670002799 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 339670002800 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 339670002801 putative ion selectivity filter; other site 339670002802 putative pore gating glutamate residue; other site 339670002803 putative H+/Cl- coupling transport residue; other site 339670002804 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 339670002805 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 339670002806 putative active site [active] 339670002807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670002808 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670002809 putative substrate translocation pore; other site 339670002810 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 339670002811 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670002812 FeS/SAM binding site; other site 339670002813 HemN C-terminal domain; Region: HemN_C; pfam06969 339670002814 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 339670002815 active site 339670002816 dimerization interface [polypeptide binding]; other site 339670002817 ribonuclease PH; Reviewed; Region: rph; PRK00173 339670002818 Ribonuclease PH; Region: RNase_PH_bact; cd11362 339670002819 hexamer interface [polypeptide binding]; other site 339670002820 active site 339670002821 hypothetical protein; Provisional; Region: PRK11820 339670002822 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 339670002823 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 339670002824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670002825 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 339670002826 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 339670002827 catalytic site [active] 339670002828 Walker A/P-loop; other site 339670002829 G-X2-G-X-G-K; other site 339670002830 ATP binding site [chemical binding]; other site 339670002831 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 339670002832 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 339670002833 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 339670002834 Zn2+ binding site [ion binding]; other site 339670002835 Mg2+ binding site [ion binding]; other site 339670002836 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 339670002837 synthetase active site [active] 339670002838 NTP binding site [chemical binding]; other site 339670002839 metal binding site [ion binding]; metal-binding site 339670002840 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 339670002841 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 339670002842 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 339670002843 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 339670002844 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 339670002845 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670002846 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670002847 eyelet of channel; other site 339670002848 trimer interface [polypeptide binding]; other site 339670002849 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 339670002850 DNA-binding site [nucleotide binding]; DNA binding site 339670002851 RNA-binding motif; other site 339670002852 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 339670002853 active site 339670002854 catalytic site [active] 339670002855 substrate binding site [chemical binding]; other site 339670002856 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 339670002857 GIY-YIG motif/motif A; other site 339670002858 active site 339670002859 catalytic site [active] 339670002860 putative DNA binding site [nucleotide binding]; other site 339670002861 metal binding site [ion binding]; metal-binding site 339670002862 chorismate mutase; Provisional; Region: PRK09269 339670002863 Chorismate mutase type II; Region: CM_2; cl00693 339670002864 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 339670002865 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 339670002866 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670002867 N-terminal plug; other site 339670002868 ligand-binding site [chemical binding]; other site 339670002869 BNR repeat-like domain; Region: BNR_2; pfam13088 339670002870 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670002871 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 339670002872 catalytic residues [active] 339670002873 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 339670002874 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670002875 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670002876 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670002877 DNA binding residues [nucleotide binding] 339670002878 dimerization interface [polypeptide binding]; other site 339670002879 fructose-1,6-bisphosphatase family protein; Region: PLN02628 339670002880 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 339670002881 AMP binding site [chemical binding]; other site 339670002882 metal binding site [ion binding]; metal-binding site 339670002883 active site 339670002884 aminopeptidase N; Provisional; Region: pepN; PRK14015 339670002885 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 339670002886 active site 339670002887 Zn binding site [ion binding]; other site 339670002888 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 339670002889 Predicted membrane protein [Function unknown]; Region: COG2119 339670002890 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 339670002891 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 339670002892 guanine deaminase; Provisional; Region: PRK09228 339670002893 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 339670002894 active site 339670002895 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 339670002896 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 339670002897 active site 339670002898 purine riboside binding site [chemical binding]; other site 339670002899 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 339670002900 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 339670002901 XdhC Rossmann domain; Region: XdhC_C; pfam13478 339670002902 disulfide bond formation protein B; Provisional; Region: PRK02110 339670002903 amidase; Provisional; Region: PRK07056 339670002904 Amidase; Region: Amidase; cl11426 339670002905 Transcriptional regulators [Transcription]; Region: GntR; COG1802 339670002906 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670002907 DNA-binding site [nucleotide binding]; DNA binding site 339670002908 FCD domain; Region: FCD; pfam07729 339670002909 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 339670002910 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 339670002911 catalytic triad [active] 339670002912 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 339670002913 citrate-proton symporter; Provisional; Region: PRK15075 339670002914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670002915 putative substrate translocation pore; other site 339670002916 TPR repeat; Region: TPR_11; pfam13414 339670002917 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670002918 binding surface 339670002919 TPR motif; other site 339670002920 TPR repeat; Region: TPR_11; pfam13414 339670002921 TPR repeat; Region: TPR_11; pfam13414 339670002922 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670002923 TPR repeat; Region: TPR_11; pfam13414 339670002924 TPR motif; other site 339670002925 binding surface 339670002926 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670002927 hypothetical protein; Provisional; Region: PRK06184 339670002928 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670002929 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 339670002930 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 339670002931 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670002932 catalytic loop [active] 339670002933 iron binding site [ion binding]; other site 339670002934 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 339670002935 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 339670002936 [4Fe-4S] binding site [ion binding]; other site 339670002937 molybdopterin cofactor binding site; other site 339670002938 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 339670002939 molybdopterin cofactor binding site; other site 339670002940 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 339670002941 putative dimer interface [polypeptide binding]; other site 339670002942 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 339670002943 SLBB domain; Region: SLBB; pfam10531 339670002944 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 339670002945 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 339670002946 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 339670002947 putative dimer interface [polypeptide binding]; other site 339670002948 [2Fe-2S] cluster binding site [ion binding]; other site 339670002949 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 339670002950 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 339670002951 PBP superfamily domain; Region: PBP_like; pfam12727 339670002952 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670002953 Cohesin [Cell division and chromosome partitioning]; Region: IRR1; COG5537 339670002954 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 339670002955 homodimer interface [polypeptide binding]; other site 339670002956 putative active site [active] 339670002957 catalytic site [active] 339670002958 Integrase; Region: Integrase_1; pfam12835 339670002959 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 339670002960 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 339670002961 integrase; Provisional; Region: PRK09692 339670002962 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 339670002963 active site 339670002964 Int/Topo IB signature motif; other site 339670002965 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670002966 motif II; other site 339670002967 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 339670002968 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670002969 S-adenosylmethionine binding site [chemical binding]; other site 339670002970 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670002971 ligand binding site [chemical binding]; other site 339670002972 DNA gyrase subunit A; Validated; Region: PRK05560 339670002973 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 339670002974 CAP-like domain; other site 339670002975 active site 339670002976 primary dimer interface [polypeptide binding]; other site 339670002977 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 339670002978 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 339670002979 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 339670002980 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 339670002981 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 339670002982 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 339670002983 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 339670002984 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 339670002985 homodimer interface [polypeptide binding]; other site 339670002986 substrate-cofactor binding pocket; other site 339670002987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670002988 catalytic residue [active] 339670002989 Chorismate mutase type II; Region: CM_2; cl00693 339670002990 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 339670002991 Prephenate dehydratase; Region: PDT; pfam00800 339670002992 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 339670002993 putative L-Phe binding site [chemical binding]; other site 339670002994 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 339670002995 prephenate dehydrogenase; Validated; Region: PRK08507 339670002996 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 339670002997 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 339670002998 hinge; other site 339670002999 active site 339670003000 cytidylate kinase; Provisional; Region: cmk; PRK00023 339670003001 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 339670003002 CMP-binding site; other site 339670003003 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 339670003004 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 339670003005 RNA binding site [nucleotide binding]; other site 339670003006 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 339670003007 RNA binding site [nucleotide binding]; other site 339670003008 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 339670003009 RNA binding site [nucleotide binding]; other site 339670003010 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 339670003011 RNA binding site [nucleotide binding]; other site 339670003012 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 339670003013 RNA binding site [nucleotide binding]; other site 339670003014 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 339670003015 RNA binding site [nucleotide binding]; other site 339670003016 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 339670003017 IHF dimer interface [polypeptide binding]; other site 339670003018 IHF - DNA interface [nucleotide binding]; other site 339670003019 tetratricopeptide repeat protein; Provisional; Region: PRK11788 339670003020 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670003021 binding surface 339670003022 TPR motif; other site 339670003023 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 339670003024 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 339670003025 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 339670003026 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 339670003027 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 339670003028 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670003029 putative ribose interaction site [chemical binding]; other site 339670003030 putative ADP binding site [chemical binding]; other site 339670003031 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 339670003032 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 339670003033 NADP binding site [chemical binding]; other site 339670003034 homopentamer interface [polypeptide binding]; other site 339670003035 substrate binding site [chemical binding]; other site 339670003036 active site 339670003037 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 339670003038 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 339670003039 cysteine synthase B; Region: cysM; TIGR01138 339670003040 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 339670003041 dimer interface [polypeptide binding]; other site 339670003042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670003043 catalytic residue [active] 339670003044 Transglycosylase SLT domain; Region: SLT_2; pfam13406 339670003045 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670003046 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670003047 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 339670003048 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 339670003049 putative active site [active] 339670003050 Zn binding site [ion binding]; other site 339670003051 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 339670003052 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670003053 Serine hydrolase; Region: Ser_hydrolase; cl17834 339670003054 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 339670003055 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 339670003056 Walker A/P-loop; other site 339670003057 ATP binding site [chemical binding]; other site 339670003058 Q-loop/lid; other site 339670003059 ABC transporter signature motif; other site 339670003060 Walker B; other site 339670003061 D-loop; other site 339670003062 H-loop/switch region; other site 339670003063 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 339670003064 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670003065 dimer interface [polypeptide binding]; other site 339670003066 conserved gate region; other site 339670003067 ABC-ATPase subunit interface; other site 339670003068 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 339670003069 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 339670003070 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 339670003071 Ligand binding site [chemical binding]; other site 339670003072 Electron transfer flavoprotein domain; Region: ETF; pfam01012 339670003073 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 339670003074 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 339670003075 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 339670003076 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 339670003077 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670003078 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 339670003079 AsnC family; Region: AsnC_trans_reg; pfam01037 339670003080 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 339670003081 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 339670003082 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 339670003083 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 339670003084 RimM N-terminal domain; Region: RimM; pfam01782 339670003085 PRC-barrel domain; Region: PRC; pfam05239 339670003086 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 339670003087 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 339670003088 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 339670003089 putative active site [active] 339670003090 putative CoA binding site [chemical binding]; other site 339670003091 nudix motif; other site 339670003092 metal binding site [ion binding]; metal-binding site 339670003093 CobD/CbiB family protein; Provisional; Region: PRK07630 339670003094 GTPase RsgA; Reviewed; Region: PRK00098 339670003095 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 339670003096 RNA binding site [nucleotide binding]; other site 339670003097 homodimer interface [polypeptide binding]; other site 339670003098 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 339670003099 GTPase/Zn-binding domain interface [polypeptide binding]; other site 339670003100 GTP/Mg2+ binding site [chemical binding]; other site 339670003101 G4 box; other site 339670003102 G5 box; other site 339670003103 G1 box; other site 339670003104 Switch I region; other site 339670003105 G2 box; other site 339670003106 G3 box; other site 339670003107 Switch II region; other site 339670003108 Peptidase family M48; Region: Peptidase_M48; pfam01435 339670003109 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 339670003110 catalytic site [active] 339670003111 putative active site [active] 339670003112 putative substrate binding site [chemical binding]; other site 339670003113 dimer interface [polypeptide binding]; other site 339670003114 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 339670003115 MPT binding site; other site 339670003116 trimer interface [polypeptide binding]; other site 339670003117 hypothetical protein; Provisional; Region: PRK05255 339670003118 peptidase PmbA; Provisional; Region: PRK11040 339670003119 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 339670003120 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 339670003121 folate binding site [chemical binding]; other site 339670003122 NADP+ binding site [chemical binding]; other site 339670003123 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 339670003124 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670003125 Walker A motif; other site 339670003126 ATP binding site [chemical binding]; other site 339670003127 Walker B motif; other site 339670003128 arginine finger; other site 339670003129 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 339670003130 thymidylate synthase; Provisional; Region: thyA; PRK13821 339670003131 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 339670003132 dimerization interface [polypeptide binding]; other site 339670003133 active site 339670003134 FecR protein; Region: FecR; pfam04773 339670003135 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670003136 dimerization interface [polypeptide binding]; other site 339670003137 putative DNA binding site [nucleotide binding]; other site 339670003138 putative Zn2+ binding site [ion binding]; other site 339670003139 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 339670003140 fumarate hydratase; Reviewed; Region: fumC; PRK00485 339670003141 Class II fumarases; Region: Fumarase_classII; cd01362 339670003142 active site 339670003143 tetramer interface [polypeptide binding]; other site 339670003144 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 339670003145 putative efflux protein, MATE family; Region: matE; TIGR00797 339670003146 cation binding site [ion binding]; other site 339670003147 S4 domain; Region: S4_2; pfam13275 339670003148 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 339670003149 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 339670003150 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 339670003151 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670003152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670003153 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670003154 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670003155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 339670003156 CreA protein; Region: CreA; pfam05981 339670003157 Ferredoxin [Energy production and conversion]; Region: COG1146 339670003158 4Fe-4S binding domain; Region: Fer4; cl02805 339670003159 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 339670003160 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 339670003161 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 339670003162 active site 339670003163 Uncharacterized conserved protein [Function unknown]; Region: COG1556 339670003164 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 339670003165 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 339670003166 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 339670003167 dimerization interface [polypeptide binding]; other site 339670003168 ligand binding site [chemical binding]; other site 339670003169 NADP binding site [chemical binding]; other site 339670003170 catalytic site [active] 339670003171 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 339670003172 RmuC family; Region: RmuC; pfam02646 339670003173 putative acetyltransferase; Provisional; Region: PRK03624 339670003174 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670003175 Coenzyme A binding pocket [chemical binding]; other site 339670003176 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 339670003177 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 339670003178 dimer interface [polypeptide binding]; other site 339670003179 putative functional site; other site 339670003180 putative MPT binding site; other site 339670003181 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 339670003182 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 339670003183 GTP binding site; other site 339670003184 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 339670003185 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670003186 FeS/SAM binding site; other site 339670003187 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 339670003188 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 339670003189 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 339670003190 homodimer interface [polypeptide binding]; other site 339670003191 oligonucleotide binding site [chemical binding]; other site 339670003192 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 339670003193 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 339670003194 RNA binding surface [nucleotide binding]; other site 339670003195 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 339670003196 active site 339670003197 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 339670003198 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670003199 motif II; other site 339670003200 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 339670003201 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 339670003202 iron-sulfur cluster [ion binding]; other site 339670003203 [2Fe-2S] cluster binding site [ion binding]; other site 339670003204 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 339670003205 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 339670003206 tandem repeat interface [polypeptide binding]; other site 339670003207 oligomer interface [polypeptide binding]; other site 339670003208 active site residues [active] 339670003209 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 339670003210 putative SAM binding site [chemical binding]; other site 339670003211 homodimer interface [polypeptide binding]; other site 339670003212 Maf-like protein; Region: Maf; pfam02545 339670003213 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 339670003214 active site 339670003215 dimer interface [polypeptide binding]; other site 339670003216 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 339670003217 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 339670003218 putative phosphate acyltransferase; Provisional; Region: PRK05331 339670003219 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 339670003220 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 339670003221 dimer interface [polypeptide binding]; other site 339670003222 active site 339670003223 CoA binding pocket [chemical binding]; other site 339670003224 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 339670003225 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 339670003226 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 339670003227 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 339670003228 NAD(P) binding site [chemical binding]; other site 339670003229 homotetramer interface [polypeptide binding]; other site 339670003230 homodimer interface [polypeptide binding]; other site 339670003231 active site 339670003232 acyl carrier protein; Provisional; Region: acpP; PRK00982 339670003233 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 339670003234 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 339670003235 dimer interface [polypeptide binding]; other site 339670003236 active site 339670003237 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 339670003238 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670003239 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670003240 DNA binding residues [nucleotide binding] 339670003241 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 339670003242 anti-sigma E factor; Provisional; Region: rseB; PRK09455 339670003243 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 339670003244 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 339670003245 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 339670003246 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 339670003247 protein binding site [polypeptide binding]; other site 339670003248 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 339670003249 protein binding site [polypeptide binding]; other site 339670003250 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 339670003251 GTP-binding protein LepA; Provisional; Region: PRK05433 339670003252 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 339670003253 G1 box; other site 339670003254 putative GEF interaction site [polypeptide binding]; other site 339670003255 GTP/Mg2+ binding site [chemical binding]; other site 339670003256 Switch I region; other site 339670003257 G2 box; other site 339670003258 G3 box; other site 339670003259 Switch II region; other site 339670003260 G4 box; other site 339670003261 G5 box; other site 339670003262 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 339670003263 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 339670003264 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 339670003265 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 339670003266 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 339670003267 Catalytic site [active] 339670003268 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 339670003269 ribonuclease III; Reviewed; Region: PRK12372 339670003270 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 339670003271 dimerization interface [polypeptide binding]; other site 339670003272 active site 339670003273 metal binding site [ion binding]; metal-binding site 339670003274 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 339670003275 GTPase Era; Reviewed; Region: era; PRK00089 339670003276 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 339670003277 G1 box; other site 339670003278 GTP/Mg2+ binding site [chemical binding]; other site 339670003279 Switch I region; other site 339670003280 G2 box; other site 339670003281 Switch II region; other site 339670003282 G3 box; other site 339670003283 G4 box; other site 339670003284 G5 box; other site 339670003285 KH domain; Region: KH_2; pfam07650 339670003286 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 339670003287 Recombination protein O N terminal; Region: RecO_N; pfam11967 339670003288 Recombination protein O C terminal; Region: RecO_C; pfam02565 339670003289 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 339670003290 active site 339670003291 hydrophilic channel; other site 339670003292 dimerization interface [polypeptide binding]; other site 339670003293 catalytic residues [active] 339670003294 active site lid [active] 339670003295 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 339670003296 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 339670003297 beta-hexosaminidase; Provisional; Region: PRK05337 339670003298 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 339670003299 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670003300 active site 339670003301 phosphorylation site [posttranslational modification] 339670003302 intermolecular recognition site; other site 339670003303 dimerization interface [polypeptide binding]; other site 339670003304 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670003305 Walker A motif; other site 339670003306 ATP binding site [chemical binding]; other site 339670003307 Walker B motif; other site 339670003308 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670003309 elongation factor P; Validated; Region: PRK00529 339670003310 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 339670003311 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 339670003312 RNA binding site [nucleotide binding]; other site 339670003313 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 339670003314 RNA binding site [nucleotide binding]; other site 339670003315 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 339670003316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 339670003317 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 339670003318 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 339670003319 GIY-YIG motif/motif A; other site 339670003320 active site 339670003321 catalytic site [active] 339670003322 putative DNA binding site [nucleotide binding]; other site 339670003323 metal binding site [ion binding]; metal-binding site 339670003324 UvrB/uvrC motif; Region: UVR; pfam02151 339670003325 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 339670003326 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 339670003327 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 339670003328 Cache domain; Region: Cache_1; pfam02743 339670003329 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670003330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670003331 metal binding site [ion binding]; metal-binding site 339670003332 active site 339670003333 I-site; other site 339670003334 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 339670003335 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 339670003336 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670003337 non-specific DNA binding site [nucleotide binding]; other site 339670003338 salt bridge; other site 339670003339 sequence-specific DNA binding site [nucleotide binding]; other site 339670003340 Cupin domain; Region: Cupin_2; pfam07883 339670003341 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 339670003342 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 339670003343 active site 339670003344 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 339670003345 LysR family transcriptional regulator; Provisional; Region: PRK14997 339670003346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670003347 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 339670003348 putative effector binding pocket; other site 339670003349 putative dimerization interface [polypeptide binding]; other site 339670003350 Pirin-related protein [General function prediction only]; Region: COG1741 339670003351 Pirin; Region: Pirin; pfam02678 339670003352 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 339670003353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670003354 Coenzyme A binding pocket [chemical binding]; other site 339670003355 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 339670003356 Protein of unknown function (DUF461); Region: DUF461; pfam04314 339670003357 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 339670003358 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670003359 Cu(I) binding site [ion binding]; other site 339670003360 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 339670003361 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 339670003362 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 339670003363 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 339670003364 active site 339670003365 homotetramer interface [polypeptide binding]; other site 339670003366 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 339670003367 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 339670003368 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670003369 Walker A/P-loop; other site 339670003370 ATP binding site [chemical binding]; other site 339670003371 Q-loop/lid; other site 339670003372 ABC transporter signature motif; other site 339670003373 Walker B; other site 339670003374 D-loop; other site 339670003375 H-loop/switch region; other site 339670003376 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670003377 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 339670003378 putative ADP-binding pocket [chemical binding]; other site 339670003379 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 339670003380 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 339670003381 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 339670003382 active site 339670003383 tetramer interface [polypeptide binding]; other site 339670003384 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670003385 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 339670003386 DNA-binding site [nucleotide binding]; DNA binding site 339670003387 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 339670003388 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670003389 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670003390 dimerization interface [polypeptide binding]; other site 339670003391 ligand binding site [chemical binding]; other site 339670003392 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 339670003393 Phosphoesterase family; Region: Phosphoesterase; pfam04185 339670003394 Domain of unknown function (DUF756); Region: DUF756; pfam05506 339670003395 Domain of unknown function (DUF756); Region: DUF756; pfam05506 339670003396 pyridoxamine kinase; Validated; Region: PRK05756 339670003397 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 339670003398 dimer interface [polypeptide binding]; other site 339670003399 pyridoxal binding site [chemical binding]; other site 339670003400 ATP binding site [chemical binding]; other site 339670003401 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670003402 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670003403 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 339670003404 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 339670003405 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 339670003406 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 339670003407 ligand binding site; other site 339670003408 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 339670003409 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 339670003410 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 339670003411 B12 binding site [chemical binding]; other site 339670003412 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670003413 FeS/SAM binding site; other site 339670003414 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 339670003415 putative active site [active] 339670003416 YdjC motif; other site 339670003417 Mg binding site [ion binding]; other site 339670003418 putative homodimer interface [polypeptide binding]; other site 339670003419 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 339670003420 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 339670003421 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670003422 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670003423 dimer interface [polypeptide binding]; other site 339670003424 conserved gate region; other site 339670003425 putative PBP binding loops; other site 339670003426 ABC-ATPase subunit interface; other site 339670003427 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670003428 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670003429 dimer interface [polypeptide binding]; other site 339670003430 conserved gate region; other site 339670003431 putative PBP binding loops; other site 339670003432 ABC-ATPase subunit interface; other site 339670003433 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 339670003434 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670003435 Walker A/P-loop; other site 339670003436 ATP binding site [chemical binding]; other site 339670003437 Q-loop/lid; other site 339670003438 ABC transporter signature motif; other site 339670003439 Walker B; other site 339670003440 D-loop; other site 339670003441 H-loop/switch region; other site 339670003442 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670003443 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 339670003444 conserved cys residue [active] 339670003445 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670003446 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670003447 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 339670003448 PAAR motif; Region: PAAR_motif; pfam05488 339670003449 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 339670003450 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670003451 inhibitor-cofactor binding pocket; inhibition site 339670003452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670003453 catalytic residue [active] 339670003454 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 339670003455 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 339670003456 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 339670003457 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 339670003458 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 339670003459 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 339670003460 NAD(P) binding site [chemical binding]; other site 339670003461 catalytic residues [active] 339670003462 succinylarginine dihydrolase; Provisional; Region: PRK13281 339670003463 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 339670003464 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 339670003465 putative active site [active] 339670003466 Zn binding site [ion binding]; other site 339670003467 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 339670003468 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670003469 substrate binding pocket [chemical binding]; other site 339670003470 membrane-bound complex binding site; other site 339670003471 hinge residues; other site 339670003472 HDOD domain; Region: HDOD; pfam08668 339670003473 PAS domain; Region: PAS_9; pfam13426 339670003474 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670003475 putative active site [active] 339670003476 heme pocket [chemical binding]; other site 339670003477 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670003478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670003479 metal binding site [ion binding]; metal-binding site 339670003480 active site 339670003481 I-site; other site 339670003482 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670003483 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 339670003484 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670003485 catalytic triad [active] 339670003486 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 339670003487 NADH(P)-binding; Region: NAD_binding_10; pfam13460 339670003488 NAD(P) binding site [chemical binding]; other site 339670003489 putative active site [active] 339670003490 NYN domain; Region: NYN; pfam01936 339670003491 putative metal binding site [ion binding]; other site 339670003492 Uncharacterized conserved protein [Function unknown]; Region: COG1432 339670003493 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 339670003494 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 339670003495 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670003496 metal binding site [ion binding]; metal-binding site 339670003497 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 339670003498 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670003499 catalytic loop [active] 339670003500 iron binding site [ion binding]; other site 339670003501 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670003502 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 339670003503 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670003504 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 339670003505 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670003506 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670003507 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670003508 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670003509 trimer interface [polypeptide binding]; other site 339670003510 eyelet of channel; other site 339670003511 Cupin; Region: Cupin_6; pfam12852 339670003512 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670003513 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670003514 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670003515 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 339670003516 Protein export membrane protein; Region: SecD_SecF; cl14618 339670003517 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 339670003518 Protein export membrane protein; Region: SecD_SecF; cl14618 339670003519 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 339670003520 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670003521 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670003522 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670003523 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670003524 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670003525 hypothetical protein; Provisional; Region: PRK07236 339670003526 hypothetical protein; Provisional; Region: PRK06847 339670003527 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670003528 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 339670003529 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 339670003530 Predicted transcriptional regulator [Transcription]; Region: COG1959 339670003531 Transcriptional regulator; Region: Rrf2; pfam02082 339670003532 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 339670003533 NADH(P)-binding; Region: NAD_binding_10; pfam13460 339670003534 NAD binding site [chemical binding]; other site 339670003535 substrate binding site [chemical binding]; other site 339670003536 putative active site [active] 339670003537 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670003538 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670003539 putative DNA binding site [nucleotide binding]; other site 339670003540 putative Zn2+ binding site [ion binding]; other site 339670003541 AsnC family; Region: AsnC_trans_reg; pfam01037 339670003542 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 339670003543 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 339670003544 Walker A/P-loop; other site 339670003545 ATP binding site [chemical binding]; other site 339670003546 Q-loop/lid; other site 339670003547 ABC transporter signature motif; other site 339670003548 Walker B; other site 339670003549 D-loop; other site 339670003550 H-loop/switch region; other site 339670003551 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 339670003552 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670003553 dimer interface [polypeptide binding]; other site 339670003554 conserved gate region; other site 339670003555 putative PBP binding loops; other site 339670003556 ABC-ATPase subunit interface; other site 339670003557 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670003558 dimer interface [polypeptide binding]; other site 339670003559 conserved gate region; other site 339670003560 putative PBP binding loops; other site 339670003561 ABC-ATPase subunit interface; other site 339670003562 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 339670003563 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 339670003564 putative proline-specific permease; Provisional; Region: proY; PRK10580 339670003565 Spore germination protein; Region: Spore_permease; cl17796 339670003566 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 339670003567 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 339670003568 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 339670003569 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 339670003570 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 339670003571 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 339670003572 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 339670003573 Family description; Region: UvrD_C_2; pfam13538 339670003574 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 339670003575 AAA domain; Region: AAA_30; pfam13604 339670003576 Family description; Region: UvrD_C_2; pfam13538 339670003577 hypothetical protein; Provisional; Region: PRK09256 339670003578 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670003579 EamA-like transporter family; Region: EamA; pfam00892 339670003580 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 339670003581 EamA-like transporter family; Region: EamA; pfam00892 339670003582 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 339670003583 ThiC-associated domain; Region: ThiC-associated; pfam13667 339670003584 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 339670003585 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 339670003586 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 339670003587 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 339670003588 Moco binding site; other site 339670003589 metal coordination site [ion binding]; other site 339670003590 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670003591 non-specific DNA binding site [nucleotide binding]; other site 339670003592 salt bridge; other site 339670003593 sequence-specific DNA binding site [nucleotide binding]; other site 339670003594 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 339670003595 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 339670003596 EamA-like transporter family; Region: EamA; pfam00892 339670003597 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670003598 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 339670003599 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 339670003600 active site 339670003601 metal binding site [ion binding]; metal-binding site 339670003602 hexamer interface [polypeptide binding]; other site 339670003603 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 339670003604 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670003605 Walker A/P-loop; other site 339670003606 ATP binding site [chemical binding]; other site 339670003607 Q-loop/lid; other site 339670003608 ABC transporter signature motif; other site 339670003609 Walker B; other site 339670003610 D-loop; other site 339670003611 H-loop/switch region; other site 339670003612 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670003613 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670003614 dimer interface [polypeptide binding]; other site 339670003615 conserved gate region; other site 339670003616 putative PBP binding loops; other site 339670003617 ABC-ATPase subunit interface; other site 339670003618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670003619 dimer interface [polypeptide binding]; other site 339670003620 conserved gate region; other site 339670003621 ABC-ATPase subunit interface; other site 339670003622 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 339670003623 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 339670003624 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670003625 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670003626 DNA binding site [nucleotide binding] 339670003627 domain linker motif; other site 339670003628 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 339670003629 putative dimerization interface [polypeptide binding]; other site 339670003630 putative ligand binding site [chemical binding]; other site 339670003631 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 339670003632 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 339670003633 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 339670003634 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 339670003635 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 339670003636 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 339670003637 tetramer interface [polypeptide binding]; other site 339670003638 TPP-binding site [chemical binding]; other site 339670003639 heterodimer interface [polypeptide binding]; other site 339670003640 phosphorylation loop region [posttranslational modification] 339670003641 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 339670003642 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 339670003643 alpha subunit interface [polypeptide binding]; other site 339670003644 TPP binding site [chemical binding]; other site 339670003645 heterodimer interface [polypeptide binding]; other site 339670003646 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 339670003647 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 339670003648 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 339670003649 E3 interaction surface; other site 339670003650 lipoyl attachment site [posttranslational modification]; other site 339670003651 e3 binding domain; Region: E3_binding; pfam02817 339670003652 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 339670003653 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 339670003654 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670003655 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670003656 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 339670003657 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 339670003658 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 339670003659 NAD binding site [chemical binding]; other site 339670003660 active site 339670003661 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 339670003662 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 339670003663 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 339670003664 Na binding site [ion binding]; other site 339670003665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670003666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670003667 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670003668 dimerization interface [polypeptide binding]; other site 339670003669 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670003670 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670003671 putative substrate translocation pore; other site 339670003672 allantoate amidohydrolase; Reviewed; Region: PRK12893 339670003673 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 339670003674 active site 339670003675 metal binding site [ion binding]; metal-binding site 339670003676 dimer interface [polypeptide binding]; other site 339670003677 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 339670003678 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 339670003679 active site 339670003680 Zn binding site [ion binding]; other site 339670003681 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 339670003682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670003683 putative substrate translocation pore; other site 339670003684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670003685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670003686 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 339670003687 dimerization interface [polypeptide binding]; other site 339670003688 substrate binding pocket [chemical binding]; other site 339670003689 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 339670003690 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 339670003691 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670003692 catalytic residue [active] 339670003693 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 339670003694 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 339670003695 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670003696 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670003697 dimerization interface [polypeptide binding]; other site 339670003698 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 339670003699 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 339670003700 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 339670003701 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 339670003702 putative dimer interface [polypeptide binding]; other site 339670003703 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 339670003704 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 339670003705 putative dimer interface [polypeptide binding]; other site 339670003706 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 339670003707 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 339670003708 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670003709 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 339670003710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670003711 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670003712 dimerization interface [polypeptide binding]; other site 339670003713 Malonate transporter MadL subunit; Region: MadL; cl04273 339670003714 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 339670003715 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 339670003716 Coenzyme A transferase; Region: CoA_trans; cl17247 339670003717 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 339670003718 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 339670003719 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 339670003720 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 339670003721 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 339670003722 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 339670003723 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 339670003724 Acyl transferase domain; Region: Acyl_transf_1; cl08282 339670003725 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 339670003726 PLD-like domain; Region: PLDc_2; pfam13091 339670003727 putative active site [active] 339670003728 catalytic site [active] 339670003729 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670003730 active site 339670003731 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 339670003732 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 339670003733 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670003734 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 339670003735 C-terminal domain interface [polypeptide binding]; other site 339670003736 GSH binding site (G-site) [chemical binding]; other site 339670003737 dimer interface [polypeptide binding]; other site 339670003738 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 339670003739 dimer interface [polypeptide binding]; other site 339670003740 N-terminal domain interface [polypeptide binding]; other site 339670003741 putative substrate binding pocket (H-site) [chemical binding]; other site 339670003742 proline/glycine betaine transporter; Provisional; Region: PRK10642 339670003743 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670003744 putative substrate translocation pore; other site 339670003745 hypothetical protein; Provisional; Region: PRK02237 339670003746 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 339670003747 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 339670003748 active site 339670003749 catalytic site [active] 339670003750 substrate binding site [chemical binding]; other site 339670003751 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 339670003752 RNA/DNA hybrid binding site [nucleotide binding]; other site 339670003753 active site 339670003754 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670003755 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 339670003756 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 339670003757 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670003758 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670003759 catalytic residue [active] 339670003760 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 339670003761 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 339670003762 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670003763 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670003764 putative substrate translocation pore; other site 339670003765 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 339670003766 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 339670003767 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 339670003768 catalytic site [active] 339670003769 subunit interface [polypeptide binding]; other site 339670003770 leucine export protein LeuE; Provisional; Region: PRK10958 339670003771 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 339670003772 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 339670003773 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 339670003774 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 339670003775 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 339670003776 ATP-grasp domain; Region: ATP-grasp_4; cl17255 339670003777 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 339670003778 IMP binding site; other site 339670003779 dimer interface [polypeptide binding]; other site 339670003780 interdomain contacts; other site 339670003781 partial ornithine binding site; other site 339670003782 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 339670003783 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 339670003784 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 339670003785 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 339670003786 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 339670003787 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 339670003788 FtsJ-like methyltransferase; Region: FtsJ; cl17430 339670003789 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 339670003790 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670003791 Walker A motif; other site 339670003792 ATP binding site [chemical binding]; other site 339670003793 Walker B motif; other site 339670003794 arginine finger; other site 339670003795 Peptidase family M41; Region: Peptidase_M41; pfam01434 339670003796 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 339670003797 dihydropteroate synthase; Region: DHPS; TIGR01496 339670003798 substrate binding pocket [chemical binding]; other site 339670003799 dimer interface [polypeptide binding]; other site 339670003800 inhibitor binding site; inhibition site 339670003801 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 339670003802 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 339670003803 active site 339670003804 substrate binding site [chemical binding]; other site 339670003805 metal binding site [ion binding]; metal-binding site 339670003806 PBP superfamily domain; Region: PBP_like_2; cl17296 339670003807 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 339670003808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670003809 dimer interface [polypeptide binding]; other site 339670003810 conserved gate region; other site 339670003811 putative PBP binding loops; other site 339670003812 ABC-ATPase subunit interface; other site 339670003813 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 339670003814 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670003815 dimer interface [polypeptide binding]; other site 339670003816 conserved gate region; other site 339670003817 putative PBP binding loops; other site 339670003818 ABC-ATPase subunit interface; other site 339670003819 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 339670003820 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 339670003821 Walker A/P-loop; other site 339670003822 ATP binding site [chemical binding]; other site 339670003823 Q-loop/lid; other site 339670003824 ABC transporter signature motif; other site 339670003825 Walker B; other site 339670003826 D-loop; other site 339670003827 H-loop/switch region; other site 339670003828 transcriptional regulator PhoU; Provisional; Region: PRK11115 339670003829 PhoU domain; Region: PhoU; pfam01895 339670003830 PhoU domain; Region: PhoU; pfam01895 339670003831 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 339670003832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670003833 active site 339670003834 phosphorylation site [posttranslational modification] 339670003835 intermolecular recognition site; other site 339670003836 dimerization interface [polypeptide binding]; other site 339670003837 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670003838 DNA binding site [nucleotide binding] 339670003839 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 339670003840 PAS domain; Region: PAS; smart00091 339670003841 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670003842 dimer interface [polypeptide binding]; other site 339670003843 phosphorylation site [posttranslational modification] 339670003844 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670003845 ATP binding site [chemical binding]; other site 339670003846 Mg2+ binding site [ion binding]; other site 339670003847 G-X-G motif; other site 339670003848 polyphosphate kinase; Provisional; Region: PRK05443 339670003849 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 339670003850 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 339670003851 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 339670003852 putative active site [active] 339670003853 catalytic site [active] 339670003854 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 339670003855 putative domain interface [polypeptide binding]; other site 339670003856 putative active site [active] 339670003857 catalytic site [active] 339670003858 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 339670003859 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 339670003860 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 339670003861 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 339670003862 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 339670003863 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 339670003864 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 339670003865 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 339670003866 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 339670003867 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 339670003868 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 339670003869 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 339670003870 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 339670003871 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 339670003872 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 339670003873 catalytic core [active] 339670003874 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 339670003875 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 339670003876 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 339670003877 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 339670003878 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 339670003879 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 339670003880 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 339670003881 active site 339670003882 acyl-activating enzyme (AAE) consensus motif; other site 339670003883 putative CoA binding site [chemical binding]; other site 339670003884 AMP binding site [chemical binding]; other site 339670003885 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 339670003886 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 339670003887 Peptidase family M23; Region: Peptidase_M23; pfam01551 339670003888 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 339670003889 active site 339670003890 catalytic residues [active] 339670003891 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 339670003892 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 339670003893 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 339670003894 active site 339670003895 catalytic site [active] 339670003896 substrate binding site [chemical binding]; other site 339670003897 Killing trait; Region: RebB; pfam11747 339670003898 Killing trait; Region: RebB; pfam11747 339670003899 Killing trait; Region: RebB; pfam11747 339670003900 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 339670003901 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 339670003902 ligand binding site [chemical binding]; other site 339670003903 flexible hinge region; other site 339670003904 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 339670003905 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 339670003906 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 339670003907 Killing trait; Region: RebB; pfam11747 339670003908 Domain of unknown function (DUF718); Region: DUF718; pfam05336 339670003909 galactarate dehydratase; Region: galactar-dH20; TIGR03248 339670003910 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 339670003911 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 339670003912 altronate oxidoreductase; Provisional; Region: PRK03643 339670003913 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 339670003914 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 339670003915 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 339670003916 putative NAD(P) binding site [chemical binding]; other site 339670003917 catalytic Zn binding site [ion binding]; other site 339670003918 structural Zn binding site [ion binding]; other site 339670003919 Amidohydrolase; Region: Amidohydro_2; pfam04909 339670003920 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 339670003921 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670003922 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670003923 active site 339670003924 catalytic tetrad [active] 339670003925 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 339670003926 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 339670003927 putative ligand binding site [chemical binding]; other site 339670003928 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670003929 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670003930 TM-ABC transporter signature motif; other site 339670003931 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 339670003932 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670003933 Walker A/P-loop; other site 339670003934 ATP binding site [chemical binding]; other site 339670003935 Q-loop/lid; other site 339670003936 ABC transporter signature motif; other site 339670003937 Walker B; other site 339670003938 D-loop; other site 339670003939 H-loop/switch region; other site 339670003940 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670003941 Transcriptional regulators [Transcription]; Region: FadR; COG2186 339670003942 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670003943 DNA-binding site [nucleotide binding]; DNA binding site 339670003944 FCD domain; Region: FCD; pfam07729 339670003945 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 339670003946 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670003947 catalytic loop [active] 339670003948 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 339670003949 iron binding site [ion binding]; other site 339670003950 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670003951 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 339670003952 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 339670003953 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670003954 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670003955 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 339670003956 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 339670003957 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670003958 active site 339670003959 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 339670003960 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 339670003961 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 339670003962 NAD(P) binding site [chemical binding]; other site 339670003963 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670003964 dimerization interface [polypeptide binding]; other site 339670003965 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 339670003966 dimer interface [polypeptide binding]; other site 339670003967 phosphorylation site [posttranslational modification] 339670003968 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670003969 ATP binding site [chemical binding]; other site 339670003970 Mg2+ binding site [ion binding]; other site 339670003971 G-X-G motif; other site 339670003972 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670003973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670003974 active site 339670003975 phosphorylation site [posttranslational modification] 339670003976 intermolecular recognition site; other site 339670003977 dimerization interface [polypeptide binding]; other site 339670003978 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670003979 DNA binding site [nucleotide binding] 339670003980 MltA-interacting protein MipA; Region: MipA; cl01504 339670003981 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 339670003982 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670003983 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670003984 catalytic residue [active] 339670003985 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 339670003986 VirB7 interaction site; other site 339670003987 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670003988 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670003989 trimer interface [polypeptide binding]; other site 339670003990 eyelet of channel; other site 339670003991 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 339670003992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670003993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670003994 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 339670003995 putative dimerization interface [polypeptide binding]; other site 339670003996 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 339670003997 Citrate transporter; Region: CitMHS; pfam03600 339670003998 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 339670003999 Cache domain; Region: Cache_1; pfam02743 339670004000 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670004001 dimerization interface [polypeptide binding]; other site 339670004002 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670004003 dimer interface [polypeptide binding]; other site 339670004004 putative CheW interface [polypeptide binding]; other site 339670004005 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 339670004006 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 339670004007 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 339670004008 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 339670004009 putative acyl-acceptor binding pocket; other site 339670004010 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 339670004011 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 339670004012 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670004013 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670004014 S-adenosylmethionine binding site [chemical binding]; other site 339670004015 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 339670004016 active site 339670004017 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670004018 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670004019 metal binding site [ion binding]; metal-binding site 339670004020 I-site; other site 339670004021 cellulose synthase regulator protein; Provisional; Region: PRK11114 339670004022 endo-1,4-D-glucanase; Provisional; Region: PRK11097 339670004023 Tetratricopeptide repeat; Region: TPR_16; pfam13432 339670004024 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 339670004025 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 339670004026 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 339670004027 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 339670004028 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 339670004029 DXD motif; other site 339670004030 PilZ domain; Region: PilZ; pfam07238 339670004031 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 339670004032 Pirin-related protein [General function prediction only]; Region: COG1741 339670004033 Pirin; Region: Pirin; pfam02678 339670004034 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 339670004035 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 339670004036 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 339670004037 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 339670004038 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 339670004039 Isochorismatase family; Region: Isochorismatase; pfam00857 339670004040 catalytic triad [active] 339670004041 dimer interface [polypeptide binding]; other site 339670004042 conserved cis-peptide bond; other site 339670004043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670004044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670004045 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670004046 putative effector binding pocket; other site 339670004047 dimerization interface [polypeptide binding]; other site 339670004048 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 339670004049 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 339670004050 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 339670004051 active site 339670004052 Predicted membrane protein [Function unknown]; Region: COG2259 339670004053 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 339670004054 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 339670004055 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 339670004056 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 339670004057 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 339670004058 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 339670004059 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 339670004060 nudix motif; other site 339670004061 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 339670004062 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 339670004063 active site 339670004064 HIGH motif; other site 339670004065 nucleotide binding site [chemical binding]; other site 339670004066 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 339670004067 KMSKS motif; other site 339670004068 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 339670004069 Serine hydrolase; Region: Ser_hydrolase; pfam06821 339670004070 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670004071 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670004072 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 339670004073 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 339670004074 motif 1; other site 339670004075 active site 339670004076 motif 2; other site 339670004077 motif 3; other site 339670004078 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 339670004079 DHHA1 domain; Region: DHHA1; pfam02272 339670004080 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 339670004081 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 339670004082 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 339670004083 haemagglutination activity domain; Region: Haemagg_act; smart00912 339670004084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670004085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670004086 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 339670004087 putative dimerization interface [polypeptide binding]; other site 339670004088 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 339670004089 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 339670004090 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 339670004091 nudix motif; other site 339670004092 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 339670004093 active site 339670004094 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 339670004095 TM-ABC transporter signature motif; other site 339670004096 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 339670004097 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 339670004098 TM-ABC transporter signature motif; other site 339670004099 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 339670004100 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 339670004101 Walker A/P-loop; other site 339670004102 ATP binding site [chemical binding]; other site 339670004103 Q-loop/lid; other site 339670004104 ABC transporter signature motif; other site 339670004105 Walker B; other site 339670004106 D-loop; other site 339670004107 H-loop/switch region; other site 339670004108 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 339670004109 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 339670004110 Walker A/P-loop; other site 339670004111 ATP binding site [chemical binding]; other site 339670004112 Q-loop/lid; other site 339670004113 ABC transporter signature motif; other site 339670004114 Walker B; other site 339670004115 D-loop; other site 339670004116 H-loop/switch region; other site 339670004117 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 339670004118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670004119 NAD(P) binding site [chemical binding]; other site 339670004120 active site 339670004121 hypothetical protein; Provisional; Region: PRK02487 339670004122 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 339670004123 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 339670004124 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 339670004125 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 339670004126 dimer interface [polypeptide binding]; other site 339670004127 PYR/PP interface [polypeptide binding]; other site 339670004128 TPP binding site [chemical binding]; other site 339670004129 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 339670004130 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 339670004131 TPP-binding site [chemical binding]; other site 339670004132 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670004133 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 339670004134 substrate binding site [chemical binding]; other site 339670004135 ATP binding site [chemical binding]; other site 339670004136 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 339670004137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 339670004138 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 339670004139 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 339670004140 putative ligand binding site [chemical binding]; other site 339670004141 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 339670004142 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670004143 Walker A/P-loop; other site 339670004144 ATP binding site [chemical binding]; other site 339670004145 Q-loop/lid; other site 339670004146 ABC transporter signature motif; other site 339670004147 Walker B; other site 339670004148 D-loop; other site 339670004149 H-loop/switch region; other site 339670004150 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670004151 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670004152 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670004153 TM-ABC transporter signature motif; other site 339670004154 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 339670004155 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 339670004156 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 339670004157 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 339670004158 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 339670004159 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 339670004160 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 339670004161 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 339670004162 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 339670004163 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 339670004164 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 339670004165 putative active site [active] 339670004166 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 339670004167 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 339670004168 tetrameric interface [polypeptide binding]; other site 339670004169 NAD binding site [chemical binding]; other site 339670004170 catalytic residues [active] 339670004171 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670004172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670004173 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670004174 putative effector binding pocket; other site 339670004175 dimerization interface [polypeptide binding]; other site 339670004176 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 339670004177 CPxP motif; other site 339670004178 Meckelin (Transmembrane protein 67); Region: Meckelin; pfam09773 339670004179 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670004180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670004181 active site 339670004182 phosphorylation site [posttranslational modification] 339670004183 intermolecular recognition site; other site 339670004184 dimerization interface [polypeptide binding]; other site 339670004185 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670004186 DNA binding site [nucleotide binding] 339670004187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 339670004188 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 339670004189 FecR protein; Region: FecR; pfam04773 339670004190 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 339670004191 CHASE2 domain; Region: CHASE2; pfam05226 339670004192 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 339670004193 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670004194 dimer interface [polypeptide binding]; other site 339670004195 phosphorylation site [posttranslational modification] 339670004196 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670004197 ATP binding site [chemical binding]; other site 339670004198 Mg2+ binding site [ion binding]; other site 339670004199 G-X-G motif; other site 339670004200 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 339670004201 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 339670004202 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 339670004203 active site 339670004204 tetramer interface; other site 339670004205 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 339670004206 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 339670004207 HIGH motif; other site 339670004208 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 339670004209 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 339670004210 active site 339670004211 KMSKS motif; other site 339670004212 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 339670004213 tRNA binding surface [nucleotide binding]; other site 339670004214 anticodon binding site; other site 339670004215 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 339670004216 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 339670004217 Part of AAA domain; Region: AAA_19; pfam13245 339670004218 Family description; Region: UvrD_C_2; pfam13538 339670004219 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 339670004220 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 339670004221 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 339670004222 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670004223 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670004224 putative substrate translocation pore; other site 339670004225 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 339670004226 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670004227 dimer interface [polypeptide binding]; other site 339670004228 putative CheW interface [polypeptide binding]; other site 339670004229 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 339670004230 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670004231 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670004232 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 339670004233 Fusaric acid resistance protein family; Region: FUSC; pfam04632 339670004234 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 339670004235 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670004236 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670004237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670004238 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670004239 putative effector binding pocket; other site 339670004240 dimerization interface [polypeptide binding]; other site 339670004241 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 339670004242 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 339670004243 putative active site [active] 339670004244 putative metal binding site [ion binding]; other site 339670004245 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 339670004246 FAD binding domain; Region: FAD_binding_4; pfam01565 339670004247 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 339670004248 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 339670004249 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670004250 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 339670004251 Protein of unknown function (DUF962); Region: DUF962; cl01879 339670004252 FOG: CBS domain [General function prediction only]; Region: COG0517 339670004253 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 339670004254 H+ Antiporter protein; Region: 2A0121; TIGR00900 339670004255 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 339670004256 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 339670004257 putative acyl-acceptor binding pocket; other site 339670004258 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 339670004259 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 339670004260 Tetramer interface [polypeptide binding]; other site 339670004261 active site 339670004262 FMN-binding site [chemical binding]; other site 339670004263 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670004264 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670004265 DNA binding site [nucleotide binding] 339670004266 domain linker motif; other site 339670004267 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 339670004268 putative dimerization interface [polypeptide binding]; other site 339670004269 putative ligand binding site [chemical binding]; other site 339670004270 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670004271 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 339670004272 substrate binding site [chemical binding]; other site 339670004273 dimer interface [polypeptide binding]; other site 339670004274 ATP binding site [chemical binding]; other site 339670004275 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670004276 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 339670004277 putative substrate translocation pore; other site 339670004278 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 339670004279 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 339670004280 inhibitor site; inhibition site 339670004281 active site 339670004282 dimer interface [polypeptide binding]; other site 339670004283 catalytic residue [active] 339670004284 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 339670004285 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670004286 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 339670004287 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 339670004288 short chain dehydrogenase; Provisional; Region: PRK06949 339670004289 classical (c) SDRs; Region: SDR_c; cd05233 339670004290 NAD(P) binding site [chemical binding]; other site 339670004291 active site 339670004292 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 339670004293 active site 339670004294 PAS domain; Region: PAS_9; pfam13426 339670004295 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670004296 putative active site [active] 339670004297 heme pocket [chemical binding]; other site 339670004298 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670004299 DNA binding residues [nucleotide binding] 339670004300 dimerization interface [polypeptide binding]; other site 339670004301 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 339670004302 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 339670004303 short chain dehydrogenase; Provisional; Region: PRK07041 339670004304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670004305 NAD(P) binding site [chemical binding]; other site 339670004306 active site 339670004307 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 339670004308 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 339670004309 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 339670004310 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670004311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670004312 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670004313 putative effector binding pocket; other site 339670004314 dimerization interface [polypeptide binding]; other site 339670004315 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670004316 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670004317 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 339670004318 homotrimer interaction site [polypeptide binding]; other site 339670004319 putative active site [active] 339670004320 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 339670004321 HD domain; Region: HD_4; pfam13328 339670004322 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 339670004323 synthetase active site [active] 339670004324 NTP binding site [chemical binding]; other site 339670004325 metal binding site [ion binding]; metal-binding site 339670004326 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 339670004327 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 339670004328 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 339670004329 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 339670004330 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 339670004331 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 339670004332 active site 339670004333 dimer interface [polypeptide binding]; other site 339670004334 motif 1; other site 339670004335 motif 2; other site 339670004336 motif 3; other site 339670004337 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 339670004338 anticodon binding site; other site 339670004339 translation initiation factor IF-3; Region: infC; TIGR00168 339670004340 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 339670004341 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 339670004342 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 339670004343 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 339670004344 23S rRNA binding site [nucleotide binding]; other site 339670004345 L21 binding site [polypeptide binding]; other site 339670004346 L13 binding site [polypeptide binding]; other site 339670004347 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 339670004348 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 339670004349 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 339670004350 dimer interface [polypeptide binding]; other site 339670004351 motif 1; other site 339670004352 active site 339670004353 motif 2; other site 339670004354 motif 3; other site 339670004355 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 339670004356 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 339670004357 putative tRNA-binding site [nucleotide binding]; other site 339670004358 B3/4 domain; Region: B3_4; pfam03483 339670004359 tRNA synthetase B5 domain; Region: B5; smart00874 339670004360 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 339670004361 dimer interface [polypeptide binding]; other site 339670004362 motif 1; other site 339670004363 motif 3; other site 339670004364 motif 2; other site 339670004365 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 339670004366 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 339670004367 IHF dimer interface [polypeptide binding]; other site 339670004368 IHF - DNA interface [nucleotide binding]; other site 339670004369 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 339670004370 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 339670004371 DNA binding residues [nucleotide binding] 339670004372 Methyltransferase domain; Region: Methyltransf_23; pfam13489 339670004373 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 339670004374 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 339670004375 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 339670004376 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 339670004377 Uncharacterized conserved protein [Function unknown]; Region: COG1434 339670004378 putative active site [active] 339670004379 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 339670004380 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670004381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670004382 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 339670004383 putative dimerization interface [polypeptide binding]; other site 339670004384 aspartate aminotransferase; Provisional; Region: PRK06108 339670004385 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670004386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670004387 homodimer interface [polypeptide binding]; other site 339670004388 catalytic residue [active] 339670004389 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 339670004390 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 339670004391 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 339670004392 RNA binding surface [nucleotide binding]; other site 339670004393 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 339670004394 probable active site [active] 339670004395 ribosome maturation protein RimP; Reviewed; Region: PRK00092 339670004396 Sm and related proteins; Region: Sm_like; cl00259 339670004397 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 339670004398 putative oligomer interface [polypeptide binding]; other site 339670004399 putative RNA binding site [nucleotide binding]; other site 339670004400 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 339670004401 NusA N-terminal domain; Region: NusA_N; pfam08529 339670004402 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 339670004403 RNA binding site [nucleotide binding]; other site 339670004404 homodimer interface [polypeptide binding]; other site 339670004405 NusA-like KH domain; Region: KH_5; pfam13184 339670004406 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 339670004407 G-X-X-G motif; other site 339670004408 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 339670004409 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 339670004410 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 339670004411 translation initiation factor IF-2; Region: IF-2; TIGR00487 339670004412 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 339670004413 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 339670004414 G1 box; other site 339670004415 putative GEF interaction site [polypeptide binding]; other site 339670004416 GTP/Mg2+ binding site [chemical binding]; other site 339670004417 Switch I region; other site 339670004418 G2 box; other site 339670004419 G3 box; other site 339670004420 Switch II region; other site 339670004421 G4 box; other site 339670004422 G5 box; other site 339670004423 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 339670004424 Translation-initiation factor 2; Region: IF-2; pfam11987 339670004425 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 339670004426 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 339670004427 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 339670004428 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 339670004429 RNA binding site [nucleotide binding]; other site 339670004430 active site 339670004431 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 339670004432 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670004433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670004434 putative substrate translocation pore; other site 339670004435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670004436 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 339670004437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670004438 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670004439 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670004440 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670004441 MarR family; Region: MarR_2; cl17246 339670004442 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 339670004443 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 339670004444 G1 box; other site 339670004445 putative GEF interaction site [polypeptide binding]; other site 339670004446 GTP/Mg2+ binding site [chemical binding]; other site 339670004447 Switch I region; other site 339670004448 G2 box; other site 339670004449 G3 box; other site 339670004450 Switch II region; other site 339670004451 G4 box; other site 339670004452 G5 box; other site 339670004453 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 339670004454 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 339670004455 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 339670004456 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 339670004457 TPP-binding site [chemical binding]; other site 339670004458 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 339670004459 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 339670004460 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 339670004461 E3 interaction surface; other site 339670004462 lipoyl attachment site [posttranslational modification]; other site 339670004463 e3 binding domain; Region: E3_binding; pfam02817 339670004464 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 339670004465 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 339670004466 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670004467 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 339670004468 Predicted ATPase [General function prediction only]; Region: COG1485 339670004469 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670004470 Walker B; other site 339670004471 D-loop; other site 339670004472 H-loop/switch region; other site 339670004473 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 339670004474 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 339670004475 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 339670004476 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 339670004477 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 339670004478 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 339670004479 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 339670004480 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 339670004481 TadE-like protein; Region: TadE; pfam07811 339670004482 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 339670004483 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 339670004484 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 339670004485 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 339670004486 AAA domain; Region: AAA_31; pfam13614 339670004487 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 339670004488 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 339670004489 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 339670004490 ATP binding site [chemical binding]; other site 339670004491 Walker A motif; other site 339670004492 hexamer interface [polypeptide binding]; other site 339670004493 Walker B motif; other site 339670004494 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 339670004495 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670004496 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 339670004497 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670004498 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 339670004499 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 339670004500 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 339670004501 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 339670004502 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 339670004503 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670004504 Walker A motif; other site 339670004505 ATP binding site [chemical binding]; other site 339670004506 Walker B motif; other site 339670004507 arginine finger; other site 339670004508 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670004509 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 339670004510 bacterial Hfq-like; Region: Hfq; cd01716 339670004511 hexamer interface [polypeptide binding]; other site 339670004512 Sm1 motif; other site 339670004513 RNA binding site [nucleotide binding]; other site 339670004514 Sm2 motif; other site 339670004515 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 339670004516 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 339670004517 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 339670004518 acyl-activating enzyme (AAE) consensus motif; other site 339670004519 putative AMP binding site [chemical binding]; other site 339670004520 putative active site [active] 339670004521 putative CoA binding site [chemical binding]; other site 339670004522 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670004523 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670004524 putative sialic acid transporter; Region: 2A0112; TIGR00891 339670004525 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670004526 putative substrate translocation pore; other site 339670004527 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 339670004528 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 339670004529 high affinity sulphate transporter 1; Region: sulP; TIGR00815 339670004530 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 339670004531 Sulfate transporter family; Region: Sulfate_transp; pfam00916 339670004532 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 339670004533 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670004534 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 339670004535 putative substrate binding site [chemical binding]; other site 339670004536 putative ATP binding site [chemical binding]; other site 339670004537 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 339670004538 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 339670004539 putative ligand binding site [chemical binding]; other site 339670004540 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670004541 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670004542 TM-ABC transporter signature motif; other site 339670004543 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 339670004544 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670004545 Walker A/P-loop; other site 339670004546 ATP binding site [chemical binding]; other site 339670004547 Q-loop/lid; other site 339670004548 ABC transporter signature motif; other site 339670004549 Walker B; other site 339670004550 D-loop; other site 339670004551 H-loop/switch region; other site 339670004552 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670004553 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 339670004554 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 339670004555 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 339670004556 CHASE2 domain; Region: CHASE2; pfam05226 339670004557 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 339670004558 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670004559 dimer interface [polypeptide binding]; other site 339670004560 phosphorylation site [posttranslational modification] 339670004561 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670004562 ATP binding site [chemical binding]; other site 339670004563 Mg2+ binding site [ion binding]; other site 339670004564 G-X-G motif; other site 339670004565 Chitinase A, N-terminal domain; Region: ChitinaseA_N; pfam08329 339670004566 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 339670004567 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 339670004568 active site 339670004569 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 339670004570 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 339670004571 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 339670004572 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 339670004573 Chitin binding domain; Region: Chitin_bind_3; pfam03067 339670004574 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 339670004575 aromatic chitin/cellulose binding site residues [chemical binding]; other site 339670004576 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 339670004577 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 339670004578 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670004579 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670004580 catalytic residue [active] 339670004581 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 339670004582 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670004583 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670004584 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 339670004585 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 339670004586 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 339670004587 Walker A motif; other site 339670004588 ATP binding site [chemical binding]; other site 339670004589 Walker B motif; other site 339670004590 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 339670004591 Secretin and TonB N terminus short domain; Region: STN; smart00965 339670004592 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 339670004593 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 339670004594 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 339670004595 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 339670004596 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 339670004597 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 339670004598 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670004599 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670004600 active site 339670004601 phosphorylation site [posttranslational modification] 339670004602 intermolecular recognition site; other site 339670004603 dimerization interface [polypeptide binding]; other site 339670004604 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670004605 DNA binding site [nucleotide binding] 339670004606 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 339670004607 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 339670004608 Transposase; Region: HTH_Tnp_1; cl17663 339670004609 Helix-turn-helix domain; Region: HTH_28; pfam13518 339670004610 putative transposase OrfB; Reviewed; Region: PHA02517 339670004611 HTH-like domain; Region: HTH_21; pfam13276 339670004612 Integrase core domain; Region: rve; pfam00665 339670004613 Integrase core domain; Region: rve_2; pfam13333 339670004614 ribonuclease R; Region: RNase_R; TIGR02063 339670004615 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 339670004616 RNB domain; Region: RNB; pfam00773 339670004617 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 339670004618 RNA binding site [nucleotide binding]; other site 339670004619 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 339670004620 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 339670004621 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 339670004622 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 339670004623 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 339670004624 amidase catalytic site [active] 339670004625 Zn binding residues [ion binding]; other site 339670004626 substrate binding site [chemical binding]; other site 339670004627 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 339670004628 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 339670004629 tetramer (dimer of dimers) interface [polypeptide binding]; other site 339670004630 active site 339670004631 dimer interface [polypeptide binding]; other site 339670004632 Transcriptional regulators [Transcription]; Region: FadR; COG2186 339670004633 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670004634 DNA-binding site [nucleotide binding]; DNA binding site 339670004635 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 339670004636 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 339670004637 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 339670004638 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670004639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670004640 dimer interface [polypeptide binding]; other site 339670004641 conserved gate region; other site 339670004642 putative PBP binding loops; other site 339670004643 ABC-ATPase subunit interface; other site 339670004644 cystine transporter subunit; Provisional; Region: PRK11260 339670004645 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670004646 substrate binding pocket [chemical binding]; other site 339670004647 membrane-bound complex binding site; other site 339670004648 hinge residues; other site 339670004649 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 339670004650 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 339670004651 quinone interaction residues [chemical binding]; other site 339670004652 active site 339670004653 catalytic residues [active] 339670004654 FMN binding site [chemical binding]; other site 339670004655 substrate binding site [chemical binding]; other site 339670004656 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 339670004657 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 339670004658 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 339670004659 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 339670004660 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 339670004661 nudix motif; other site 339670004662 hypothetical protein; Provisional; Region: PRK02487 339670004663 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 339670004664 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 339670004665 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670004666 substrate binding site [chemical binding]; other site 339670004667 oxyanion hole (OAH) forming residues; other site 339670004668 trimer interface [polypeptide binding]; other site 339670004669 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 339670004670 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 339670004671 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 339670004672 active site 339670004673 dimer interface [polypeptide binding]; other site 339670004674 non-prolyl cis peptide bond; other site 339670004675 insertion regions; other site 339670004676 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 339670004677 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670004678 dimer interface [polypeptide binding]; other site 339670004679 conserved gate region; other site 339670004680 putative PBP binding loops; other site 339670004681 ABC-ATPase subunit interface; other site 339670004682 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 339670004683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670004684 Walker A/P-loop; other site 339670004685 ATP binding site [chemical binding]; other site 339670004686 Q-loop/lid; other site 339670004687 ABC transporter signature motif; other site 339670004688 Walker B; other site 339670004689 D-loop; other site 339670004690 H-loop/switch region; other site 339670004691 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 339670004692 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 339670004693 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 339670004694 FMN binding site [chemical binding]; other site 339670004695 active site 339670004696 catalytic residues [active] 339670004697 substrate binding site [chemical binding]; other site 339670004698 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 339670004699 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 339670004700 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 339670004701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670004702 Coenzyme A binding pocket [chemical binding]; other site 339670004703 Family of unknown function (DUF695); Region: DUF695; pfam05117 339670004704 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 339670004705 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 339670004706 putative dimer interface [polypeptide binding]; other site 339670004707 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670004708 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 339670004709 PLD-like domain; Region: PLDc_2; pfam13091 339670004710 putative active site [active] 339670004711 catalytic site [active] 339670004712 Predicted transcriptional regulators [Transcription]; Region: COG1733 339670004713 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 339670004714 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 339670004715 CoenzymeA binding site [chemical binding]; other site 339670004716 subunit interaction site [polypeptide binding]; other site 339670004717 PHB binding site; other site 339670004718 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670004719 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670004720 active site 339670004721 catalytic tetrad [active] 339670004722 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670004723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670004724 putative substrate translocation pore; other site 339670004725 hypothetical protein; Provisional; Region: PRK07079 339670004726 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 339670004727 metal binding site [ion binding]; metal-binding site 339670004728 putative dimer interface [polypeptide binding]; other site 339670004729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670004730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670004731 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670004732 dimerization interface [polypeptide binding]; other site 339670004733 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 339670004734 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 339670004735 active site residue [active] 339670004736 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670004737 Walker A/P-loop; other site 339670004738 ATP binding site [chemical binding]; other site 339670004739 Q-loop/lid; other site 339670004740 Predicted permease; Region: DUF318; cl17795 339670004741 ABC-2 type transporter; Region: ABC2_membrane; cl17235 339670004742 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 339670004743 nodulation ABC transporter NodI; Provisional; Region: PRK13537 339670004744 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 339670004745 Walker A/P-loop; other site 339670004746 ATP binding site [chemical binding]; other site 339670004747 Q-loop/lid; other site 339670004748 ABC transporter signature motif; other site 339670004749 Walker B; other site 339670004750 D-loop; other site 339670004751 H-loop/switch region; other site 339670004752 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670004753 Ligand Binding Site [chemical binding]; other site 339670004754 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 339670004755 LexA repressor; Validated; Region: PRK00215 339670004756 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 339670004757 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 339670004758 Catalytic site [active] 339670004759 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670004760 substrate binding pocket [chemical binding]; other site 339670004761 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 339670004762 membrane-bound complex binding site; other site 339670004763 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 339670004764 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670004765 dimer interface [polypeptide binding]; other site 339670004766 conserved gate region; other site 339670004767 putative PBP binding loops; other site 339670004768 ABC-ATPase subunit interface; other site 339670004769 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 339670004770 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670004771 dimer interface [polypeptide binding]; other site 339670004772 conserved gate region; other site 339670004773 putative PBP binding loops; other site 339670004774 ABC-ATPase subunit interface; other site 339670004775 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 339670004776 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 339670004777 Walker A/P-loop; other site 339670004778 ATP binding site [chemical binding]; other site 339670004779 Q-loop/lid; other site 339670004780 ABC transporter signature motif; other site 339670004781 Walker B; other site 339670004782 D-loop; other site 339670004783 H-loop/switch region; other site 339670004784 TOBE-like domain; Region: TOBE_3; pfam12857 339670004785 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 339670004786 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670004787 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 339670004788 substrate binding site [chemical binding]; other site 339670004789 dimerization interface [polypeptide binding]; other site 339670004790 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 339670004791 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 339670004792 ligand binding site [chemical binding]; other site 339670004793 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 339670004794 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670004795 Walker A/P-loop; other site 339670004796 ATP binding site [chemical binding]; other site 339670004797 Q-loop/lid; other site 339670004798 ABC transporter signature motif; other site 339670004799 Walker B; other site 339670004800 D-loop; other site 339670004801 H-loop/switch region; other site 339670004802 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670004803 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670004804 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670004805 TM-ABC transporter signature motif; other site 339670004806 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670004807 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670004808 DNA binding site [nucleotide binding] 339670004809 domain linker motif; other site 339670004810 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 339670004811 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670004812 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 339670004813 substrate binding site [chemical binding]; other site 339670004814 dimer interface [polypeptide binding]; other site 339670004815 ATP binding site [chemical binding]; other site 339670004816 Tar ligand binding domain homologue; Region: TarH; pfam02203 339670004817 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670004818 dimer interface [polypeptide binding]; other site 339670004819 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 339670004820 putative CheW interface [polypeptide binding]; other site 339670004821 PrkA family serine protein kinase; Provisional; Region: PRK15455 339670004822 AAA ATPase domain; Region: AAA_16; pfam13191 339670004823 Walker A motif; other site 339670004824 ATP binding site [chemical binding]; other site 339670004825 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 339670004826 hypothetical protein; Provisional; Region: PRK05325 339670004827 SpoVR family protein; Provisional; Region: PRK11767 339670004828 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 339670004829 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 339670004830 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670004831 putative substrate translocation pore; other site 339670004832 Rhomboid family; Region: Rhomboid; pfam01694 339670004833 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 339670004834 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670004835 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670004836 substrate binding pocket [chemical binding]; other site 339670004837 membrane-bound complex binding site; other site 339670004838 hinge residues; other site 339670004839 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670004840 dimer interface [polypeptide binding]; other site 339670004841 conserved gate region; other site 339670004842 putative PBP binding loops; other site 339670004843 ABC-ATPase subunit interface; other site 339670004844 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670004845 dimer interface [polypeptide binding]; other site 339670004846 conserved gate region; other site 339670004847 putative PBP binding loops; other site 339670004848 ABC-ATPase subunit interface; other site 339670004849 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 339670004850 Peptidase family M23; Region: Peptidase_M23; pfam01551 339670004851 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 339670004852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670004853 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 339670004854 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670004855 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670004856 multidrug efflux protein; Reviewed; Region: PRK09577 339670004857 Protein export membrane protein; Region: SecD_SecF; cl14618 339670004858 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 339670004859 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 339670004860 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 339670004861 PapC N-terminal domain; Region: PapC_N; pfam13954 339670004862 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 339670004863 PapC C-terminal domain; Region: PapC_C; pfam13953 339670004864 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 339670004865 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 339670004866 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 339670004867 Fimbrial protein; Region: Fimbrial; pfam00419 339670004868 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 339670004869 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670004870 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 339670004871 MbtH-like protein; Region: MbtH; cl01279 339670004872 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 339670004873 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 339670004874 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 339670004875 Walker A/P-loop; other site 339670004876 ATP binding site [chemical binding]; other site 339670004877 Q-loop/lid; other site 339670004878 ABC transporter signature motif; other site 339670004879 Walker B; other site 339670004880 D-loop; other site 339670004881 H-loop/switch region; other site 339670004882 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 339670004883 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 339670004884 ABC-ATPase subunit interface; other site 339670004885 dimer interface [polypeptide binding]; other site 339670004886 putative PBP binding regions; other site 339670004887 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 339670004888 ABC-ATPase subunit interface; other site 339670004889 dimer interface [polypeptide binding]; other site 339670004890 putative PBP binding regions; other site 339670004891 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 339670004892 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 339670004893 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 339670004894 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 339670004895 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 339670004896 siderophore binding site; other site 339670004897 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 339670004898 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 339670004899 Walker A/P-loop; other site 339670004900 ATP binding site [chemical binding]; other site 339670004901 Q-loop/lid; other site 339670004902 ABC transporter signature motif; other site 339670004903 Walker B; other site 339670004904 D-loop; other site 339670004905 H-loop/switch region; other site 339670004906 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670004907 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 339670004908 acyl-activating enzyme (AAE) consensus motif; other site 339670004909 AMP binding site [chemical binding]; other site 339670004910 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670004911 Condensation domain; Region: Condensation; pfam00668 339670004912 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670004913 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 339670004914 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670004915 acyl-activating enzyme (AAE) consensus motif; other site 339670004916 AMP binding site [chemical binding]; other site 339670004917 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670004918 Condensation domain; Region: Condensation; pfam00668 339670004919 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 339670004920 Condensation domain; Region: Condensation; pfam00668 339670004921 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670004922 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 339670004923 acyl-activating enzyme (AAE) consensus motif; other site 339670004924 AMP binding site [chemical binding]; other site 339670004925 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670004926 Condensation domain; Region: Condensation; pfam00668 339670004927 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670004928 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 339670004929 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670004930 acyl-activating enzyme (AAE) consensus motif; other site 339670004931 AMP binding site [chemical binding]; other site 339670004932 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670004933 Condensation domain; Region: Condensation; pfam00668 339670004934 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670004935 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 339670004936 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 339670004937 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 339670004938 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 339670004939 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670004940 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 339670004941 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670004942 N-terminal plug; other site 339670004943 ligand-binding site [chemical binding]; other site 339670004944 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 339670004945 catalytic site [active] 339670004946 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 339670004947 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 339670004948 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 339670004949 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 339670004950 oligomeric interface; other site 339670004951 putative active site [active] 339670004952 homodimer interface [polypeptide binding]; other site 339670004953 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 339670004954 active site 339670004955 catalytic site [active] 339670004956 Probable transposase; Region: OrfB_IS605; pfam01385 339670004957 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670004958 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670004959 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 339670004960 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 339670004961 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 339670004962 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 339670004963 metal binding site [ion binding]; metal-binding site 339670004964 putative dimer interface [polypeptide binding]; other site 339670004965 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 339670004966 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 339670004967 catalytic triad [active] 339670004968 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 339670004969 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 339670004970 homodimer interface [polypeptide binding]; other site 339670004971 Walker A motif; other site 339670004972 ATP binding site [chemical binding]; other site 339670004973 hydroxycobalamin binding site [chemical binding]; other site 339670004974 Walker B motif; other site 339670004975 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 339670004976 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 339670004977 active site 339670004978 SAM binding site [chemical binding]; other site 339670004979 homodimer interface [polypeptide binding]; other site 339670004980 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 339670004981 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 339670004982 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 339670004983 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 339670004984 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 339670004985 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 339670004986 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 339670004987 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670004988 Walker A motif; other site 339670004989 ATP binding site [chemical binding]; other site 339670004990 Walker B motif; other site 339670004991 arginine finger; other site 339670004992 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 339670004993 metal ion-dependent adhesion site (MIDAS); other site 339670004994 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 339670004995 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 339670004996 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 339670004997 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 339670004998 active site 339670004999 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 339670005000 nudix motif; other site 339670005001 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670005002 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670005003 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 339670005004 Citrate transporter; Region: CitMHS; pfam03600 339670005005 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670005006 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670005007 active site 339670005008 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 339670005009 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670005010 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670005011 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 339670005012 active site 339670005013 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 339670005014 aromatic chitin/cellulose binding site residues [chemical binding]; other site 339670005015 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 339670005016 aromatic chitin/cellulose binding site residues [chemical binding]; other site 339670005017 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 339670005018 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 339670005019 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 339670005020 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 339670005021 active site 339670005022 SAM binding site [chemical binding]; other site 339670005023 homodimer interface [polypeptide binding]; other site 339670005024 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 339670005025 active site 339670005026 SAM binding site [chemical binding]; other site 339670005027 homodimer interface [polypeptide binding]; other site 339670005028 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 339670005029 Precorrin-8X methylmutase; Region: CbiC; pfam02570 339670005030 precorrin-3B synthase; Region: CobG; TIGR02435 339670005031 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 339670005032 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 339670005033 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 339670005034 active site 339670005035 putative homodimer interface [polypeptide binding]; other site 339670005036 SAM binding site [chemical binding]; other site 339670005037 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 339670005038 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670005039 S-adenosylmethionine binding site [chemical binding]; other site 339670005040 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 339670005041 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 339670005042 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 339670005043 active site 339670005044 SAM binding site [chemical binding]; other site 339670005045 homodimer interface [polypeptide binding]; other site 339670005046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005047 putative substrate translocation pore; other site 339670005048 MarR family; Region: MarR_2; cl17246 339670005049 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670005050 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670005051 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 339670005052 C-terminal domain interface [polypeptide binding]; other site 339670005053 GSH binding site (G-site) [chemical binding]; other site 339670005054 dimer interface [polypeptide binding]; other site 339670005055 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 339670005056 dimer interface [polypeptide binding]; other site 339670005057 N-terminal domain interface [polypeptide binding]; other site 339670005058 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670005059 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670005060 trimer interface [polypeptide binding]; other site 339670005061 eyelet of channel; other site 339670005062 AAA domain; Region: AAA_22; pfam13401 339670005063 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670005064 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670005065 DNA binding residues [nucleotide binding] 339670005066 dimerization interface [polypeptide binding]; other site 339670005067 Universal stress protein family; Region: Usp; pfam00582 339670005068 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 339670005069 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 339670005070 NADP binding site [chemical binding]; other site 339670005071 dimer interface [polypeptide binding]; other site 339670005072 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 339670005073 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 339670005074 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 339670005075 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005076 putative substrate translocation pore; other site 339670005077 Serine hydrolase; Region: Ser_hydrolase; pfam06821 339670005078 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 339670005079 hypothetical protein; Provisional; Region: PRK11622 339670005080 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 339670005081 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670005082 Walker A/P-loop; other site 339670005083 ATP binding site [chemical binding]; other site 339670005084 Q-loop/lid; other site 339670005085 ABC transporter signature motif; other site 339670005086 Walker B; other site 339670005087 D-loop; other site 339670005088 H-loop/switch region; other site 339670005089 TOBE domain; Region: TOBE_2; pfam08402 339670005090 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 339670005091 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670005092 dimer interface [polypeptide binding]; other site 339670005093 conserved gate region; other site 339670005094 putative PBP binding loops; other site 339670005095 ABC-ATPase subunit interface; other site 339670005096 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670005097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670005098 dimer interface [polypeptide binding]; other site 339670005099 conserved gate region; other site 339670005100 putative PBP binding loops; other site 339670005101 ABC-ATPase subunit interface; other site 339670005102 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 339670005103 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 339670005104 putative ligand binding site [chemical binding]; other site 339670005105 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670005106 dimer interface [polypeptide binding]; other site 339670005107 phosphorylation site [posttranslational modification] 339670005108 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670005109 ATP binding site [chemical binding]; other site 339670005110 Mg2+ binding site [ion binding]; other site 339670005111 G-X-G motif; other site 339670005112 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 339670005113 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670005114 active site 339670005115 phosphorylation site [posttranslational modification] 339670005116 intermolecular recognition site; other site 339670005117 dimerization interface [polypeptide binding]; other site 339670005118 Response regulator receiver domain; Region: Response_reg; pfam00072 339670005119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670005120 active site 339670005121 phosphorylation site [posttranslational modification] 339670005122 intermolecular recognition site; other site 339670005123 dimerization interface [polypeptide binding]; other site 339670005124 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 339670005125 putative binding surface; other site 339670005126 active site 339670005127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670005128 Response regulator receiver domain; Region: Response_reg; pfam00072 339670005129 active site 339670005130 phosphorylation site [posttranslational modification] 339670005131 intermolecular recognition site; other site 339670005132 dimerization interface [polypeptide binding]; other site 339670005133 PAS fold; Region: PAS_3; pfam08447 339670005134 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670005135 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670005136 metal binding site [ion binding]; metal-binding site 339670005137 active site 339670005138 I-site; other site 339670005139 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670005140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670005141 active site 339670005142 phosphorylation site [posttranslational modification] 339670005143 intermolecular recognition site; other site 339670005144 dimerization interface [polypeptide binding]; other site 339670005145 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670005146 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670005147 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 339670005148 active site 339670005149 catalytic residues [active] 339670005150 metal binding site [ion binding]; metal-binding site 339670005151 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 339670005152 dimer interface [polypeptide binding]; other site 339670005153 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670005154 metal binding site [ion binding]; metal-binding site 339670005155 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 339670005156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670005157 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670005158 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 339670005159 putative dimerization interface [polypeptide binding]; other site 339670005160 benzoate transport; Region: 2A0115; TIGR00895 339670005161 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005162 putative substrate translocation pore; other site 339670005163 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005164 putative substrate translocation pore; other site 339670005165 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 339670005166 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 339670005167 FMN binding site [chemical binding]; other site 339670005168 substrate binding site [chemical binding]; other site 339670005169 putative catalytic residue [active] 339670005170 Uncharacterized conserved protein [Function unknown]; Region: COG3791 339670005171 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670005172 MarR family; Region: MarR; pfam01047 339670005173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670005174 Coenzyme A binding pocket [chemical binding]; other site 339670005175 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670005176 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 339670005177 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 339670005178 homotrimer interaction site [polypeptide binding]; other site 339670005179 putative active site [active] 339670005180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670005181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670005182 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670005183 putative effector binding pocket; other site 339670005184 dimerization interface [polypeptide binding]; other site 339670005185 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 339670005186 classical (c) SDRs; Region: SDR_c; cd05233 339670005187 NAD(P) binding site [chemical binding]; other site 339670005188 active site 339670005189 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 339670005190 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 339670005191 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005192 putative substrate translocation pore; other site 339670005193 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 339670005194 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670005195 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 339670005196 putative dimerization interface [polypeptide binding]; other site 339670005197 PAS fold; Region: PAS_4; pfam08448 339670005198 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670005199 DNA binding residues [nucleotide binding] 339670005200 dimerization interface [polypeptide binding]; other site 339670005201 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005202 putative substrate translocation pore; other site 339670005203 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670005204 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 339670005205 active site 339670005206 metal binding site [ion binding]; metal-binding site 339670005207 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 339670005208 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670005209 S-adenosylmethionine binding site [chemical binding]; other site 339670005210 Uncharacterized conserved protein [Function unknown]; Region: COG1262 339670005211 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 339670005212 Methyltransferase domain; Region: Methyltransf_23; pfam13489 339670005213 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670005214 S-adenosylmethionine binding site [chemical binding]; other site 339670005215 FOG: WD40 repeat [General function prediction only]; Region: COG2319 339670005216 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 339670005217 structural tetrad; other site 339670005218 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 339670005219 structural tetrad; other site 339670005220 FOG: WD40 repeat [General function prediction only]; Region: COG2319 339670005221 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 339670005222 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 339670005223 dimerization interface [polypeptide binding]; other site 339670005224 active site 339670005225 Sodium Bile acid symporter family; Region: SBF; cl17470 339670005226 putative bifunctional 4-alpha-glucanotransferase/malto-oligosyltrehalose synthase; Provisional; Region: PRK14507 339670005227 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670005228 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670005229 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670005230 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 339670005231 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670005232 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670005233 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670005234 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005235 putative substrate translocation pore; other site 339670005236 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005237 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670005238 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670005239 DNA binding residues [nucleotide binding] 339670005240 dimerization interface [polypeptide binding]; other site 339670005241 Predicted amidohydrolase [General function prediction only]; Region: COG0388 339670005242 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 339670005243 putative active site [active] 339670005244 catalytic triad [active] 339670005245 putative dimer interface [polypeptide binding]; other site 339670005246 amino acid transporter; Region: 2A0306; TIGR00909 339670005247 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 339670005248 putative deacylase active site [active] 339670005249 YciI-like protein; Reviewed; Region: PRK12866 339670005250 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 339670005251 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 339670005252 oligomer interface [polypeptide binding]; other site 339670005253 metal binding site [ion binding]; metal-binding site 339670005254 metal binding site [ion binding]; metal-binding site 339670005255 putative Cl binding site [ion binding]; other site 339670005256 basic sphincter; other site 339670005257 hydrophobic gate; other site 339670005258 periplasmic entrance; other site 339670005259 AAA domain; Region: AAA_33; pfam13671 339670005260 RNA helicase; Region: RNA_helicase; pfam00910 339670005261 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 339670005262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670005263 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670005264 AsnC family; Region: AsnC_trans_reg; pfam01037 339670005265 LTXXQ motif family protein; Region: LTXXQ; pfam07813 339670005266 PGDYG protein; Region: PGDYG; pfam14083 339670005267 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 339670005268 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 339670005269 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670005270 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670005271 DNA binding site [nucleotide binding] 339670005272 domain linker motif; other site 339670005273 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 339670005274 putative ligand binding site [chemical binding]; other site 339670005275 putative dimerization interface [polypeptide binding]; other site 339670005276 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670005277 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 339670005278 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 339670005279 dimerization interface [polypeptide binding]; other site 339670005280 ligand binding site [chemical binding]; other site 339670005281 NADP binding site [chemical binding]; other site 339670005282 catalytic site [active] 339670005283 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005284 D-galactonate transporter; Region: 2A0114; TIGR00893 339670005285 putative substrate translocation pore; other site 339670005286 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670005287 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 339670005288 substrate binding site [chemical binding]; other site 339670005289 ATP binding site [chemical binding]; other site 339670005290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670005291 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 339670005292 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 339670005293 putative dimerization interface [polypeptide binding]; other site 339670005294 Predicted membrane protein [Function unknown]; Region: COG2855 339670005295 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 339670005296 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 339670005297 Cl- selectivity filter; other site 339670005298 Cl- binding residues [ion binding]; other site 339670005299 pore gating glutamate residue; other site 339670005300 dimer interface [polypeptide binding]; other site 339670005301 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 339670005302 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670005303 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670005304 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 339670005305 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670005306 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 339670005307 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670005308 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 339670005309 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 339670005310 DNA binding residues [nucleotide binding] 339670005311 putative dimer interface [polypeptide binding]; other site 339670005312 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 339670005313 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 339670005314 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670005315 non-specific DNA binding site [nucleotide binding]; other site 339670005316 salt bridge; other site 339670005317 sequence-specific DNA binding site [nucleotide binding]; other site 339670005318 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 339670005319 PAS fold; Region: PAS_4; pfam08448 339670005320 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670005321 putative active site [active] 339670005322 heme pocket [chemical binding]; other site 339670005323 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670005324 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 339670005325 Walker A motif; other site 339670005326 ATP binding site [chemical binding]; other site 339670005327 Walker B motif; other site 339670005328 arginine finger; other site 339670005329 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 339670005330 Putative phosphatase (DUF442); Region: DUF442; cl17385 339670005331 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 339670005332 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 339670005333 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670005334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670005335 dimer interface [polypeptide binding]; other site 339670005336 conserved gate region; other site 339670005337 putative PBP binding loops; other site 339670005338 ABC-ATPase subunit interface; other site 339670005339 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670005340 dimer interface [polypeptide binding]; other site 339670005341 conserved gate region; other site 339670005342 putative PBP binding loops; other site 339670005343 ABC-ATPase subunit interface; other site 339670005344 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 339670005345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670005346 Walker A/P-loop; other site 339670005347 ATP binding site [chemical binding]; other site 339670005348 Q-loop/lid; other site 339670005349 ABC transporter signature motif; other site 339670005350 Walker B; other site 339670005351 D-loop; other site 339670005352 H-loop/switch region; other site 339670005353 TOBE domain; Region: TOBE_2; pfam08402 339670005354 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 339670005355 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 339670005356 Predicted Fe-S protein [General function prediction only]; Region: COG3313 339670005357 Protein of unknown function (DUF1120); Region: DUF1120; pfam06551 339670005358 putative fimbrial chaperone protein; Provisional; Region: PRK09918 339670005359 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 339670005360 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 339670005361 PapC N-terminal domain; Region: PapC_N; pfam13954 339670005362 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 339670005363 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 339670005364 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 339670005365 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 339670005366 FMN binding site [chemical binding]; other site 339670005367 substrate binding site [chemical binding]; other site 339670005368 putative catalytic residue [active] 339670005369 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 339670005370 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670005371 NAD binding site [chemical binding]; other site 339670005372 catalytic residues [active] 339670005373 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005374 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670005375 putative substrate translocation pore; other site 339670005376 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 339670005377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670005378 NAD(P) binding site [chemical binding]; other site 339670005379 active site 339670005380 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 339670005381 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670005382 acyl-activating enzyme (AAE) consensus motif; other site 339670005383 AMP binding site [chemical binding]; other site 339670005384 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670005385 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 339670005386 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 339670005387 Isochorismatase family; Region: Isochorismatase; pfam00857 339670005388 catalytic triad [active] 339670005389 conserved cis-peptide bond; other site 339670005390 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 339670005391 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 339670005392 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 339670005393 acyl-activating enzyme (AAE) consensus motif; other site 339670005394 active site 339670005395 AMP binding site [chemical binding]; other site 339670005396 substrate binding site [chemical binding]; other site 339670005397 isochorismate synthase DhbC; Validated; Region: PRK06923 339670005398 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 339670005399 enterobactin receptor protein; Provisional; Region: PRK13483 339670005400 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670005401 N-terminal plug; other site 339670005402 ligand-binding site [chemical binding]; other site 339670005403 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 339670005404 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670005405 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670005406 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670005407 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 339670005408 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 339670005409 intersubunit interface [polypeptide binding]; other site 339670005410 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 339670005411 Putative esterase; Region: Esterase; pfam00756 339670005412 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 339670005413 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 339670005414 ABC-ATPase subunit interface; other site 339670005415 dimer interface [polypeptide binding]; other site 339670005416 putative PBP binding regions; other site 339670005417 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 339670005418 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 339670005419 Walker A/P-loop; other site 339670005420 ATP binding site [chemical binding]; other site 339670005421 Q-loop/lid; other site 339670005422 ABC transporter signature motif; other site 339670005423 Walker B; other site 339670005424 D-loop; other site 339670005425 H-loop/switch region; other site 339670005426 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 339670005427 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 339670005428 NodB motif; other site 339670005429 active site 339670005430 catalytic site [active] 339670005431 metal binding site [ion binding]; metal-binding site 339670005432 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 339670005433 Phosphotransferase enzyme family; Region: APH; pfam01636 339670005434 active site 339670005435 substrate binding site [chemical binding]; other site 339670005436 ATP binding site [chemical binding]; other site 339670005437 Cephalosporin hydroxylase; Region: CmcI; pfam04989 339670005438 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 339670005439 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 339670005440 active site 339670005441 TDP-binding site; other site 339670005442 acceptor substrate-binding pocket; other site 339670005443 homodimer interface [polypeptide binding]; other site 339670005444 Asparagine synthase; Region: Asn_synthase; pfam00733 339670005445 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670005446 FeS/SAM binding site; other site 339670005447 Glutaredoxin-like domain (DUF836); Region: DUF836; cl17650 339670005448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670005449 H-loop/switch region; other site 339670005450 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 339670005451 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 339670005452 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 339670005453 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 339670005454 ABC transporter; Region: ABC_tran_2; pfam12848 339670005455 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 339670005456 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 339670005457 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 339670005458 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 339670005459 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 339670005460 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670005461 Walker A/P-loop; other site 339670005462 ATP binding site [chemical binding]; other site 339670005463 Q-loop/lid; other site 339670005464 ABC transporter signature motif; other site 339670005465 Walker B; other site 339670005466 D-loop; other site 339670005467 H-loop/switch region; other site 339670005468 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 339670005469 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 339670005470 dimer interface [polypeptide binding]; other site 339670005471 putative inhibitory loop; other site 339670005472 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 339670005473 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 339670005474 putative NAD(P) binding site [chemical binding]; other site 339670005475 dimer interface [polypeptide binding]; other site 339670005476 transcriptional activator TtdR; Provisional; Region: PRK09801 339670005477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670005478 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670005479 putative effector binding pocket; other site 339670005480 dimerization interface [polypeptide binding]; other site 339670005481 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 339670005482 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 339670005483 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670005484 motif II; other site 339670005485 cystathionine beta-lyase; Provisional; Region: PRK07050 339670005486 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670005487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670005488 catalytic residue [active] 339670005489 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 339670005490 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670005491 substrate binding site [chemical binding]; other site 339670005492 ATP binding site [chemical binding]; other site 339670005493 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 339670005494 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 339670005495 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670005496 FeS/SAM binding site; other site 339670005497 TRAM domain; Region: TRAM; cl01282 339670005498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 339670005499 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 339670005500 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 339670005501 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 339670005502 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 339670005503 NAD(P) binding site [chemical binding]; other site 339670005504 homotetramer interface [polypeptide binding]; other site 339670005505 homodimer interface [polypeptide binding]; other site 339670005506 active site 339670005507 putative acyltransferase; Provisional; Region: PRK05790 339670005508 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 339670005509 dimer interface [polypeptide binding]; other site 339670005510 active site 339670005511 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 339670005512 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 339670005513 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 339670005514 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 339670005515 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 339670005516 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 339670005517 RNA binding surface [nucleotide binding]; other site 339670005518 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 339670005519 active site 339670005520 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 339670005521 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 339670005522 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 339670005523 DEAD_2; Region: DEAD_2; pfam06733 339670005524 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 339670005525 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 339670005526 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 339670005527 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 339670005528 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 339670005529 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 339670005530 RNA binding site [nucleotide binding]; other site 339670005531 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 339670005532 potassium uptake protein; Region: kup; TIGR00794 339670005533 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 339670005534 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670005535 active site 339670005536 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 339670005537 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 339670005538 GDP-binding site [chemical binding]; other site 339670005539 ACT binding site; other site 339670005540 IMP binding site; other site 339670005541 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 339670005542 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 339670005543 dimer interface [polypeptide binding]; other site 339670005544 motif 1; other site 339670005545 active site 339670005546 motif 2; other site 339670005547 motif 3; other site 339670005548 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 339670005549 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 339670005550 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 339670005551 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 339670005552 HflK protein; Region: hflK; TIGR01933 339670005553 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 339670005554 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 339670005555 HflX GTPase family; Region: HflX; cd01878 339670005556 G1 box; other site 339670005557 GTP/Mg2+ binding site [chemical binding]; other site 339670005558 Switch I region; other site 339670005559 G2 box; other site 339670005560 G3 box; other site 339670005561 Switch II region; other site 339670005562 G4 box; other site 339670005563 G5 box; other site 339670005564 bacterial Hfq-like; Region: Hfq; cd01716 339670005565 hexamer interface [polypeptide binding]; other site 339670005566 Sm1 motif; other site 339670005567 RNA binding site [nucleotide binding]; other site 339670005568 Sm2 motif; other site 339670005569 GTP-binding protein Der; Reviewed; Region: PRK00093 339670005570 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 339670005571 G1 box; other site 339670005572 GTP/Mg2+ binding site [chemical binding]; other site 339670005573 Switch I region; other site 339670005574 G2 box; other site 339670005575 Switch II region; other site 339670005576 G3 box; other site 339670005577 G4 box; other site 339670005578 G5 box; other site 339670005579 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 339670005580 G1 box; other site 339670005581 GTP/Mg2+ binding site [chemical binding]; other site 339670005582 Switch I region; other site 339670005583 G2 box; other site 339670005584 G3 box; other site 339670005585 Switch II region; other site 339670005586 G4 box; other site 339670005587 G5 box; other site 339670005588 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 339670005589 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 339670005590 Trp docking motif [polypeptide binding]; other site 339670005591 active site 339670005592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 339670005593 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 339670005594 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 339670005595 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 339670005596 dimer interface [polypeptide binding]; other site 339670005597 motif 1; other site 339670005598 active site 339670005599 motif 2; other site 339670005600 motif 3; other site 339670005601 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 339670005602 anticodon binding site; other site 339670005603 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 339670005604 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 339670005605 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 339670005606 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670005607 non-specific DNA binding site [nucleotide binding]; other site 339670005608 salt bridge; other site 339670005609 sequence-specific DNA binding site [nucleotide binding]; other site 339670005610 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 339670005611 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 339670005612 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670005613 FeS/SAM binding site; other site 339670005614 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 339670005615 active site 339670005616 multimer interface [polypeptide binding]; other site 339670005617 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 339670005618 YccA-like proteins; Region: YccA_like; cd10433 339670005619 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 339670005620 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670005621 S-adenosylmethionine binding site [chemical binding]; other site 339670005622 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 339670005623 putative catalytic site [active] 339670005624 putative metal binding site [ion binding]; other site 339670005625 putative phosphate binding site [ion binding]; other site 339670005626 putative catalytic site [active] 339670005627 putative phosphate binding site [ion binding]; other site 339670005628 putative metal binding site [ion binding]; other site 339670005629 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 339670005630 active site 339670005631 catalytic site [active] 339670005632 substrate binding site [chemical binding]; other site 339670005633 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 339670005634 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 339670005635 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 339670005636 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670005637 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670005638 DNA binding residues [nucleotide binding] 339670005639 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 339670005640 Peptidase family M23; Region: Peptidase_M23; pfam01551 339670005641 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 339670005642 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670005643 S-adenosylmethionine binding site [chemical binding]; other site 339670005644 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 339670005645 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670005646 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670005647 recombination protein RecR; Reviewed; Region: recR; PRK00076 339670005648 RecR protein; Region: RecR; pfam02132 339670005649 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 339670005650 putative active site [active] 339670005651 putative metal-binding site [ion binding]; other site 339670005652 tetramer interface [polypeptide binding]; other site 339670005653 hypothetical protein; Validated; Region: PRK00153 339670005654 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 339670005655 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670005656 Walker A motif; other site 339670005657 ATP binding site [chemical binding]; other site 339670005658 Walker B motif; other site 339670005659 arginine finger; other site 339670005660 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 339670005661 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 339670005662 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670005663 catalytic residues [active] 339670005664 transcription termination factor Rho; Provisional; Region: rho; PRK09376 339670005665 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 339670005666 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 339670005667 RNA binding site [nucleotide binding]; other site 339670005668 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 339670005669 multimer interface [polypeptide binding]; other site 339670005670 Walker A motif; other site 339670005671 ATP binding site [chemical binding]; other site 339670005672 Walker B motif; other site 339670005673 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 339670005674 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 339670005675 DNA binding residues [nucleotide binding] 339670005676 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670005677 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670005678 putative substrate translocation pore; other site 339670005679 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 339670005680 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 339670005681 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 339670005682 multidrug efflux protein; Reviewed; Region: PRK01766 339670005683 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 339670005684 cation binding site [ion binding]; other site 339670005685 lipoyl synthase; Provisional; Region: PRK12928 339670005686 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 339670005687 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 339670005688 E3 interaction surface; other site 339670005689 lipoyl attachment site [posttranslational modification]; other site 339670005690 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 339670005691 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 339670005692 alpha subunit interface [polypeptide binding]; other site 339670005693 TPP binding site [chemical binding]; other site 339670005694 heterodimer interface [polypeptide binding]; other site 339670005695 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 339670005696 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 339670005697 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 339670005698 tetramer interface [polypeptide binding]; other site 339670005699 TPP-binding site [chemical binding]; other site 339670005700 heterodimer interface [polypeptide binding]; other site 339670005701 phosphorylation loop region [posttranslational modification] 339670005702 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 339670005703 ATP-NAD kinase; Region: NAD_kinase; pfam01513 339670005704 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 339670005705 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670005706 Walker A motif; other site 339670005707 ATP binding site [chemical binding]; other site 339670005708 Walker B motif; other site 339670005709 arginine finger; other site 339670005710 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670005711 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 339670005712 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 339670005713 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 339670005714 DNA binding residues [nucleotide binding] 339670005715 putative dimer interface [polypeptide binding]; other site 339670005716 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 339670005717 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 339670005718 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 339670005719 Clp amino terminal domain; Region: Clp_N; pfam02861 339670005720 Clp amino terminal domain; Region: Clp_N; pfam02861 339670005721 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670005722 Walker A motif; other site 339670005723 ATP binding site [chemical binding]; other site 339670005724 Walker B motif; other site 339670005725 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 339670005726 arginine finger; other site 339670005727 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670005728 Walker A motif; other site 339670005729 ATP binding site [chemical binding]; other site 339670005730 Walker B motif; other site 339670005731 arginine finger; other site 339670005732 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 339670005733 Transcriptional regulator; Region: Rrf2; cl17282 339670005734 Rrf2 family protein; Region: rrf2_super; TIGR00738 339670005735 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 339670005736 apolar tunnel; other site 339670005737 heme binding site [chemical binding]; other site 339670005738 dimerization interface [polypeptide binding]; other site 339670005739 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 339670005740 MoaE homodimer interface [polypeptide binding]; other site 339670005741 MoaD interaction [polypeptide binding]; other site 339670005742 active site residues [active] 339670005743 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 339670005744 MoaE interaction surface [polypeptide binding]; other site 339670005745 MoeB interaction surface [polypeptide binding]; other site 339670005746 thiocarboxylated glycine; other site 339670005747 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 339670005748 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 339670005749 dimer interface [polypeptide binding]; other site 339670005750 putative functional site; other site 339670005751 putative MPT binding site; other site 339670005752 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 339670005753 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 339670005754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670005755 catalytic residue [active] 339670005756 homoserine dehydrogenase; Provisional; Region: PRK06349 339670005757 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 339670005758 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 339670005759 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 339670005760 aminotransferase AlaT; Validated; Region: PRK09265 339670005761 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670005762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670005763 homodimer interface [polypeptide binding]; other site 339670005764 catalytic residue [active] 339670005765 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 339670005766 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 339670005767 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 339670005768 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 339670005769 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 339670005770 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 339670005771 inhibitor-cofactor binding pocket; inhibition site 339670005772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670005773 catalytic residue [active] 339670005774 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 339670005775 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 339670005776 Ligand binding site; other site 339670005777 Putative Catalytic site; other site 339670005778 DXD motif; other site 339670005779 putative formyltransferase; Provisional; Region: PRK06988 339670005780 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 339670005781 active site 339670005782 substrate binding site [chemical binding]; other site 339670005783 cosubstrate binding site; other site 339670005784 catalytic site [active] 339670005785 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 339670005786 active site 339670005787 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 339670005788 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 339670005789 NAD binding site [chemical binding]; other site 339670005790 substrate binding site [chemical binding]; other site 339670005791 active site 339670005792 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 339670005793 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 339670005794 putative active site [active] 339670005795 putative catalytic site [active] 339670005796 putative Zn binding site [ion binding]; other site 339670005797 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 339670005798 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 339670005799 catalytic triad [active] 339670005800 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 339670005801 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 339670005802 putative active site [active] 339670005803 PhoH-like protein; Region: PhoH; pfam02562 339670005804 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 339670005805 NlpC/P60 family; Region: NLPC_P60; pfam00877 339670005806 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 339670005807 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 339670005808 replicative DNA helicase; Provisional; Region: PRK07004 339670005809 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 339670005810 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 339670005811 Walker A motif; other site 339670005812 ATP binding site [chemical binding]; other site 339670005813 Walker B motif; other site 339670005814 DNA binding loops [nucleotide binding] 339670005815 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 339670005816 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 339670005817 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 339670005818 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 339670005819 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 339670005820 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 339670005821 Putative zinc-finger; Region: zf-HC2; pfam13490 339670005822 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 339670005823 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670005824 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670005825 DNA binding residues [nucleotide binding] 339670005826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670005827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670005828 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670005829 putative effector binding pocket; other site 339670005830 dimerization interface [polypeptide binding]; other site 339670005831 glyoxylate carboligase; Provisional; Region: PRK11269 339670005832 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 339670005833 PYR/PP interface [polypeptide binding]; other site 339670005834 dimer interface [polypeptide binding]; other site 339670005835 TPP binding site [chemical binding]; other site 339670005836 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 339670005837 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 339670005838 TPP-binding site [chemical binding]; other site 339670005839 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 339670005840 tartronate semialdehyde reductase; Provisional; Region: PRK15059 339670005841 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 339670005842 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 339670005843 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 339670005844 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 339670005845 active site 339670005846 homodimer interface [polypeptide binding]; other site 339670005847 homotetramer interface [polypeptide binding]; other site 339670005848 psiF repeat; Region: PsiF_repeat; pfam07769 339670005849 psiF repeat; Region: PsiF_repeat; pfam07769 339670005850 Domain of unknown function DUF221; Region: DUF221; pfam02714 339670005851 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 339670005852 putative amphipathic alpha helix; other site 339670005853 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 339670005854 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670005855 putative ADP-binding pocket [chemical binding]; other site 339670005856 Predicted ATPase [General function prediction only]; Region: COG4637 339670005857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670005858 Walker A/P-loop; other site 339670005859 ATP binding site [chemical binding]; other site 339670005860 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 339670005861 Mechanosensitive ion channel; Region: MS_channel; pfam00924 339670005862 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 339670005863 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 339670005864 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 339670005865 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 339670005866 active site 339670005867 DNA polymerase III subunit delta'; Validated; Region: PRK06964 339670005868 DNA polymerase III subunit delta'; Validated; Region: PRK08485 339670005869 thymidylate kinase; Validated; Region: tmk; PRK00698 339670005870 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 339670005871 TMP-binding site; other site 339670005872 ATP-binding site [chemical binding]; other site 339670005873 YceG-like family; Region: YceG; pfam02618 339670005874 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 339670005875 dimerization interface [polypeptide binding]; other site 339670005876 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 339670005877 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 339670005878 NRDE protein; Region: NRDE; cl01315 339670005879 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 339670005880 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670005881 Coenzyme A binding pocket [chemical binding]; other site 339670005882 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 339670005883 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 339670005884 substrate binding pocket [chemical binding]; other site 339670005885 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 339670005886 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 339670005887 CoenzymeA binding site [chemical binding]; other site 339670005888 subunit interaction site [polypeptide binding]; other site 339670005889 PHB binding site; other site 339670005890 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 339670005891 integrase; Provisional; Region: PRK09692 339670005892 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 339670005893 active site 339670005894 Int/Topo IB signature motif; other site 339670005895 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 339670005896 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 339670005897 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 339670005898 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 339670005899 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 339670005900 PAAR motif; Region: PAAR_motif; pfam05488 339670005901 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 339670005902 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 339670005903 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 339670005904 catalytic residue [active] 339670005905 Phage holin family 2; Region: Phage_holin_2; pfam04550 339670005906 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 339670005907 Phage Tail Protein X; Region: Phage_tail_X; cl02088 339670005908 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 339670005909 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 339670005910 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 339670005911 Phage tail tube protein FII; Region: Phage_tube; pfam04985 339670005912 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 339670005913 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 339670005914 Phage Tail Collar Domain; Region: Collar; pfam07484 339670005915 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 339670005916 Baseplate J-like protein; Region: Baseplate_J; cl01294 339670005917 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 339670005918 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 339670005919 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 339670005920 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 339670005921 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 339670005922 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 339670005923 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 339670005924 Clp protease; Region: CLP_protease; pfam00574 339670005925 oligomer interface [polypeptide binding]; other site 339670005926 active site residues [active] 339670005927 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 339670005928 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 339670005929 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 339670005930 Uncharacterized archaeal Zn-finger protein [General function prediction only]; Region: COG1326 339670005931 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670005932 MarR family; Region: MarR_2; pfam12802 339670005933 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 339670005934 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 339670005935 Zn binding sites [ion binding]; other site 339670005936 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 339670005937 Virulence-associated protein E; Region: VirE; pfam05272 339670005938 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 339670005939 non-specific DNA binding site [nucleotide binding]; other site 339670005940 salt bridge; other site 339670005941 sequence-specific DNA binding site [nucleotide binding]; other site 339670005942 Isochorismatase family; Region: Isochorismatase; pfam00857 339670005943 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 339670005944 catalytic triad [active] 339670005945 dimer interface [polypeptide binding]; other site 339670005946 conserved cis-peptide bond; other site 339670005947 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670005948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670005949 metal binding site [ion binding]; metal-binding site 339670005950 active site 339670005951 I-site; other site 339670005952 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 339670005953 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 339670005954 dimer interface [polypeptide binding]; other site 339670005955 active site 339670005956 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 339670005957 Isochorismatase family; Region: Isochorismatase; pfam00857 339670005958 catalytic triad [active] 339670005959 metal binding site [ion binding]; metal-binding site 339670005960 conserved cis-peptide bond; other site 339670005961 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670005962 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 339670005963 substrate binding site [chemical binding]; other site 339670005964 oxyanion hole (OAH) forming residues; other site 339670005965 trimer interface [polypeptide binding]; other site 339670005966 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 339670005967 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670005968 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670005969 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 339670005970 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 339670005971 dimer interface [polypeptide binding]; other site 339670005972 acyl-activating enzyme (AAE) consensus motif; other site 339670005973 putative active site [active] 339670005974 AMP binding site [chemical binding]; other site 339670005975 putative CoA binding site [chemical binding]; other site 339670005976 Uncharacterized conserved protein [Function unknown]; Region: COG0397 339670005977 hypothetical protein; Validated; Region: PRK00029 339670005978 methionine sulfoxide reductase B; Provisional; Region: PRK00222 339670005979 SelR domain; Region: SelR; pfam01641 339670005980 intracellular septation protein A; Reviewed; Region: PRK00259 339670005981 BolA-like protein; Region: BolA; pfam01722 339670005982 SurA N-terminal domain; Region: SurA_N_3; cl07813 339670005983 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 339670005984 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670005985 Coenzyme A binding pocket [chemical binding]; other site 339670005986 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 339670005987 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 339670005988 dimerization interface [polypeptide binding]; other site 339670005989 ATP binding site [chemical binding]; other site 339670005990 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 339670005991 dimerization interface [polypeptide binding]; other site 339670005992 ATP binding site [chemical binding]; other site 339670005993 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 339670005994 putative active site [active] 339670005995 catalytic triad [active] 339670005996 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 339670005997 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670005998 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 339670005999 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 339670006000 putative substrate binding site [chemical binding]; other site 339670006001 putative ATP binding site [chemical binding]; other site 339670006002 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 339670006003 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 339670006004 active site 339670006005 dimer interface [polypeptide binding]; other site 339670006006 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 339670006007 dimer interface [polypeptide binding]; other site 339670006008 active site 339670006009 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 339670006010 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 339670006011 Walker A/P-loop; other site 339670006012 ATP binding site [chemical binding]; other site 339670006013 Q-loop/lid; other site 339670006014 ABC transporter signature motif; other site 339670006015 Walker B; other site 339670006016 D-loop; other site 339670006017 H-loop/switch region; other site 339670006018 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 339670006019 active site 339670006020 catalytic triad [active] 339670006021 oxyanion hole [active] 339670006022 switch loop; other site 339670006023 SurA N-terminal domain; Region: SurA_N_3; cl07813 339670006024 periplasmic folding chaperone; Provisional; Region: PRK10788 339670006025 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 339670006026 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 339670006027 Found in ATP-dependent protease La (LON); Region: LON; smart00464 339670006028 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670006029 Walker A motif; other site 339670006030 ATP binding site [chemical binding]; other site 339670006031 Walker B motif; other site 339670006032 arginine finger; other site 339670006033 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 339670006034 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 339670006035 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 339670006036 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670006037 Walker A motif; other site 339670006038 ATP binding site [chemical binding]; other site 339670006039 Walker B motif; other site 339670006040 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 339670006041 Clp protease; Region: CLP_protease; pfam00574 339670006042 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 339670006043 oligomer interface [polypeptide binding]; other site 339670006044 active site residues [active] 339670006045 trigger factor; Provisional; Region: tig; PRK01490 339670006046 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 339670006047 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 339670006048 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 339670006049 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670006050 MarR family; Region: MarR_2; pfam12802 339670006051 MarR family; Region: MarR_2; cl17246 339670006052 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 339670006053 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 339670006054 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 339670006055 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670006056 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670006057 dimerization interface [polypeptide binding]; other site 339670006058 DNA binding residues [nucleotide binding] 339670006059 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670006060 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670006061 trimer interface [polypeptide binding]; other site 339670006062 eyelet of channel; other site 339670006063 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 339670006064 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 339670006065 active site 339670006066 Zn binding site [ion binding]; other site 339670006067 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 339670006068 active site lid residues [active] 339670006069 substrate binding pocket [chemical binding]; other site 339670006070 catalytic residues [active] 339670006071 substrate-Mg2+ binding site; other site 339670006072 aspartate-rich region 1; other site 339670006073 aspartate-rich region 2; other site 339670006074 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 339670006075 YfhG lipoprotein; Region: Lipoprotein_20; cl08141 339670006076 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 339670006077 osmolarity response regulator; Provisional; Region: ompR; PRK09468 339670006078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670006079 active site 339670006080 phosphorylation site [posttranslational modification] 339670006081 intermolecular recognition site; other site 339670006082 dimerization interface [polypeptide binding]; other site 339670006083 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670006084 DNA binding site [nucleotide binding] 339670006085 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 339670006086 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670006087 dimer interface [polypeptide binding]; other site 339670006088 phosphorylation site [posttranslational modification] 339670006089 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670006090 ATP binding site [chemical binding]; other site 339670006091 Mg2+ binding site [ion binding]; other site 339670006092 G-X-G motif; other site 339670006093 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 339670006094 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 339670006095 dimer interface [polypeptide binding]; other site 339670006096 decamer (pentamer of dimers) interface [polypeptide binding]; other site 339670006097 catalytic triad [active] 339670006098 peroxidatic and resolving cysteines [active] 339670006099 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 339670006100 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 339670006101 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 339670006102 homotrimer interaction site [polypeptide binding]; other site 339670006103 zinc binding site [ion binding]; other site 339670006104 CDP-binding sites; other site 339670006105 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 339670006106 substrate binding site; other site 339670006107 dimer interface; other site 339670006108 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 339670006109 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 339670006110 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 339670006111 ATP binding site [chemical binding]; other site 339670006112 putative Mg++ binding site [ion binding]; other site 339670006113 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670006114 nucleotide binding region [chemical binding]; other site 339670006115 ATP-binding site [chemical binding]; other site 339670006116 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 339670006117 acetylornithine deacetylase; Provisional; Region: PRK07522 339670006118 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 339670006119 metal binding site [ion binding]; metal-binding site 339670006120 putative dimer interface [polypeptide binding]; other site 339670006121 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 339670006122 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 339670006123 tetramer interface [polypeptide binding]; other site 339670006124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670006125 catalytic residue [active] 339670006126 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 339670006127 Transglycosylase; Region: Transgly; pfam00912 339670006128 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 339670006129 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 339670006130 Tetratricopeptide repeat; Region: TPR_16; pfam13432 339670006131 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 339670006132 TPR motif; other site 339670006133 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 339670006134 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 339670006135 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 339670006136 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 339670006137 Dodecin; Region: Dodecin; pfam07311 339670006138 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670006139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670006140 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 339670006141 putative substrate binding pocket [chemical binding]; other site 339670006142 putative dimerization interface [polypeptide binding]; other site 339670006143 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 339670006144 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 339670006145 active site 339670006146 putative substrate binding pocket [chemical binding]; other site 339670006147 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 339670006148 active site 339670006149 homotetramer interface [polypeptide binding]; other site 339670006150 Predicted membrane protein [Function unknown]; Region: COG3748 339670006151 Protein of unknown function (DUF989); Region: DUF989; pfam06181 339670006152 Cytochrome c; Region: Cytochrom_C; pfam00034 339670006153 ACT domain; Region: ACT_3; pfam10000 339670006154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 339670006155 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 339670006156 ureidoglycolate hydrolase; Provisional; Region: PRK03606 339670006157 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 339670006158 allantoicase; Provisional; Region: PRK13257 339670006159 Allantoicase repeat; Region: Allantoicase; pfam03561 339670006160 Allantoicase repeat; Region: Allantoicase; pfam03561 339670006161 OHCU decarboxylase; Region: UHCUDC; TIGR03164 339670006162 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 339670006163 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 339670006164 active site 339670006165 catalytic site [active] 339670006166 tetramer interface [polypeptide binding]; other site 339670006167 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 339670006168 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 339670006169 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 339670006170 Na binding site [ion binding]; other site 339670006171 putative substrate binding site [chemical binding]; other site 339670006172 Transcriptional regulators [Transcription]; Region: GntR; COG1802 339670006173 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670006174 DNA-binding site [nucleotide binding]; DNA binding site 339670006175 FCD domain; Region: FCD; pfam07729 339670006176 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 339670006177 dimer interface [polypeptide binding]; other site 339670006178 catalytic triad [active] 339670006179 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 339670006180 nucleoside/Zn binding site; other site 339670006181 dimer interface [polypeptide binding]; other site 339670006182 catalytic motif [active] 339670006183 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 339670006184 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670006185 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670006186 putative substrate translocation pore; other site 339670006187 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 339670006188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670006189 DNA-binding site [nucleotide binding]; DNA binding site 339670006190 UTRA domain; Region: UTRA; pfam07702 339670006191 putative oxidoreductase; Provisional; Region: PRK08275 339670006192 L-aspartate oxidase; Provisional; Region: PRK06175 339670006193 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 339670006194 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 339670006195 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 339670006196 HEAT repeats; Region: HEAT_2; pfam13646 339670006197 HEAT repeats; Region: HEAT_2; pfam13646 339670006198 HEAT repeats; Region: HEAT_2; pfam13646 339670006199 Protein of unknown function (DUF971); Region: DUF971; pfam06155 339670006200 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 339670006201 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 339670006202 active site 339670006203 catalytic site [active] 339670006204 substrate binding site [chemical binding]; other site 339670006205 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 339670006206 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670006207 Walker A motif; other site 339670006208 ATP binding site [chemical binding]; other site 339670006209 Walker B motif; other site 339670006210 arginine finger; other site 339670006211 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 339670006212 active site 339670006213 NTP binding site [chemical binding]; other site 339670006214 metal binding triad [ion binding]; metal-binding site 339670006215 tRNA nucleotidyltransferase, second domain; Region: tRNA_NucTransf2; pfam09249 339670006216 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 339670006217 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 339670006218 active site 339670006219 catalytic triad [active] 339670006220 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670006221 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 339670006222 Walker A motif; other site 339670006223 ATP binding site [chemical binding]; other site 339670006224 Walker B motif; other site 339670006225 arginine finger; other site 339670006226 Domain of unknown function (DUF932); Region: DUF932; pfam06067 339670006227 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 339670006228 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670006229 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670006230 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 339670006231 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 339670006232 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670006233 catalytic residues [active] 339670006234 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 339670006235 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670006236 catalytic residues [active] 339670006237 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670006238 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 339670006239 FMN binding site [chemical binding]; other site 339670006240 active site 339670006241 substrate binding site [chemical binding]; other site 339670006242 catalytic residue [active] 339670006243 OsmC-like protein; Region: OsmC; pfam02566 339670006244 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 339670006245 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 339670006246 catalytic residues [active] 339670006247 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670006248 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670006249 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 339670006250 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 339670006251 classical (c) SDRs; Region: SDR_c; cd05233 339670006252 NAD(P) binding site [chemical binding]; other site 339670006253 active site 339670006254 Uncharacterized conserved protein [Function unknown]; Region: COG5419 339670006255 Helix-turn-helix domain; Region: HTH_17; cl17695 339670006256 Replication initiator protein A; Region: RPA; pfam10134 339670006257 ParA-like protein; Provisional; Region: PHA02518 339670006258 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670006259 P-loop; other site 339670006260 Magnesium ion binding site [ion binding]; other site 339670006261 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 339670006262 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 339670006263 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 339670006264 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 339670006265 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 339670006266 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670006267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670006268 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670006269 dimerization interface [polypeptide binding]; other site 339670006270 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 339670006271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670006272 transcriptional activator TtdR; Provisional; Region: PRK09801 339670006273 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670006274 putative effector binding pocket; other site 339670006275 dimerization interface [polypeptide binding]; other site 339670006276 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 339670006277 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 339670006278 potential catalytic triad [active] 339670006279 conserved cys residue [active] 339670006280 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 339670006281 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670006282 putative substrate translocation pore; other site 339670006283 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 339670006284 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670006285 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670006286 putative DNA binding site [nucleotide binding]; other site 339670006287 putative Zn2+ binding site [ion binding]; other site 339670006288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670006289 Walker A/P-loop; other site 339670006290 ATP binding site [chemical binding]; other site 339670006291 Q-loop/lid; other site 339670006292 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 339670006293 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 339670006294 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670006295 Walker A/P-loop; other site 339670006296 ATP binding site [chemical binding]; other site 339670006297 Q-loop/lid; other site 339670006298 ABC transporter signature motif; other site 339670006299 Walker B; other site 339670006300 D-loop; other site 339670006301 H-loop/switch region; other site 339670006302 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670006303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670006304 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 339670006305 dimerization interface [polypeptide binding]; other site 339670006306 substrate binding pocket [chemical binding]; other site 339670006307 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 339670006308 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 339670006309 Walker A motif; other site 339670006310 ATP binding site [chemical binding]; other site 339670006311 Walker B motif; other site 339670006312 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 339670006313 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 339670006314 ATP binding site [chemical binding]; other site 339670006315 Walker A motif; other site 339670006316 hexamer interface [polypeptide binding]; other site 339670006317 Walker B motif; other site 339670006318 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 339670006319 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 339670006320 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 339670006321 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 339670006322 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 339670006323 Walker A motif; other site 339670006324 ATP binding site [chemical binding]; other site 339670006325 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 339670006326 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 339670006327 conjugal transfer protein TrbL; Provisional; Region: PRK13875 339670006328 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 339670006329 conjugal transfer protein TrbF; Provisional; Region: PRK13872 339670006330 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 339670006331 VirB7 interaction site; other site 339670006332 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 339670006333 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 339670006334 Transposase domain (DUF772); Region: DUF772; pfam05598 339670006335 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 339670006336 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 339670006337 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 339670006338 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 339670006339 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional; Region: PRK14844 339670006340 integrase; Provisional; Region: PRK09692 339670006341 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 339670006342 active site 339670006343 Int/Topo IB signature motif; other site 339670006344 GMP synthase; Reviewed; Region: guaA; PRK00074 339670006345 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 339670006346 AMP/PPi binding site [chemical binding]; other site 339670006347 candidate oxyanion hole; other site 339670006348 catalytic triad [active] 339670006349 potential glutamine specificity residues [chemical binding]; other site 339670006350 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 339670006351 ATP Binding subdomain [chemical binding]; other site 339670006352 Ligand Binding sites [chemical binding]; other site 339670006353 Dimerization subdomain; other site 339670006354 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 339670006355 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 339670006356 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 339670006357 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 339670006358 active site 339670006359 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 339670006360 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 339670006361 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 339670006362 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 339670006363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 339670006364 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 339670006365 putative coenzyme Q binding site [chemical binding]; other site 339670006366 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 339670006367 SmpB-tmRNA interface; other site 339670006368 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 339670006369 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 339670006370 phosphoenolpyruvate synthase; Validated; Region: PRK06464 339670006371 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 339670006372 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 339670006373 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 339670006374 PEP synthetase regulatory protein; Provisional; Region: PRK05339 339670006375 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 339670006376 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 339670006377 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 339670006378 RNA/DNA hybrid binding site [nucleotide binding]; other site 339670006379 active site 339670006380 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 339670006381 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 339670006382 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 339670006383 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 339670006384 active site 339670006385 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 339670006386 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 339670006387 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 339670006388 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 339670006389 trimer interface [polypeptide binding]; other site 339670006390 active site 339670006391 UDP-GlcNAc binding site [chemical binding]; other site 339670006392 lipid binding site [chemical binding]; lipid-binding site 339670006393 periplasmic chaperone; Provisional; Region: PRK10780 339670006394 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 339670006395 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 339670006396 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 339670006397 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 339670006398 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 339670006399 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 339670006400 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 339670006401 Surface antigen; Region: Bac_surface_Ag; pfam01103 339670006402 zinc metallopeptidase RseP; Provisional; Region: PRK10779 339670006403 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 339670006404 active site 339670006405 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 339670006406 protein binding site [polypeptide binding]; other site 339670006407 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 339670006408 putative substrate binding region [chemical binding]; other site 339670006409 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 339670006410 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 339670006411 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 339670006412 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 339670006413 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 339670006414 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 339670006415 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 339670006416 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 339670006417 catalytic residue [active] 339670006418 putative FPP diphosphate binding site; other site 339670006419 putative FPP binding hydrophobic cleft; other site 339670006420 dimer interface [polypeptide binding]; other site 339670006421 putative IPP diphosphate binding site; other site 339670006422 ribosome recycling factor; Reviewed; Region: frr; PRK00083 339670006423 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 339670006424 hinge region; other site 339670006425 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 339670006426 putative nucleotide binding site [chemical binding]; other site 339670006427 uridine monophosphate binding site [chemical binding]; other site 339670006428 homohexameric interface [polypeptide binding]; other site 339670006429 elongation factor Ts; Provisional; Region: tsf; PRK09377 339670006430 UBA/TS-N domain; Region: UBA; pfam00627 339670006431 Elongation factor TS; Region: EF_TS; pfam00889 339670006432 Elongation factor TS; Region: EF_TS; pfam00889 339670006433 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 339670006434 rRNA interaction site [nucleotide binding]; other site 339670006435 S8 interaction site; other site 339670006436 putative laminin-1 binding site; other site 339670006437 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 339670006438 active site 339670006439 PII uridylyl-transferase; Provisional; Region: PRK03059 339670006440 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 339670006441 metal binding triad; other site 339670006442 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 339670006443 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 339670006444 Zn2+ binding site [ion binding]; other site 339670006445 Mg2+ binding site [ion binding]; other site 339670006446 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 339670006447 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 339670006448 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 339670006449 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 339670006450 RNA binding surface [nucleotide binding]; other site 339670006451 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 339670006452 active site 339670006453 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 339670006454 active site 339670006455 catalytic residues [active] 339670006456 metal binding site [ion binding]; metal-binding site 339670006457 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 339670006458 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 339670006459 nucleotide binding pocket [chemical binding]; other site 339670006460 K-X-D-G motif; other site 339670006461 catalytic site [active] 339670006462 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 339670006463 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 339670006464 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 339670006465 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 339670006466 Dimer interface [polypeptide binding]; other site 339670006467 BRCT sequence motif; other site 339670006468 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 339670006469 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 339670006470 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 339670006471 Walker A/P-loop; other site 339670006472 ATP binding site [chemical binding]; other site 339670006473 Q-loop/lid; other site 339670006474 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 339670006475 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 339670006476 Q-loop/lid; other site 339670006477 ABC transporter signature motif; other site 339670006478 Walker B; other site 339670006479 D-loop; other site 339670006480 H-loop/switch region; other site 339670006481 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 339670006482 EamA-like transporter family; Region: EamA; pfam00892 339670006483 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 339670006484 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670006485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670006486 homodimer interface [polypeptide binding]; other site 339670006487 catalytic residue [active] 339670006488 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 339670006489 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 339670006490 trimer interface [polypeptide binding]; other site 339670006491 active site 339670006492 substrate binding site [chemical binding]; other site 339670006493 CoA binding site [chemical binding]; other site 339670006494 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 339670006495 ArsC family; Region: ArsC; pfam03960 339670006496 putative catalytic residues [active] 339670006497 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 339670006498 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 339670006499 metal binding site [ion binding]; metal-binding site 339670006500 dimer interface [polypeptide binding]; other site 339670006501 HemK family putative methylases; Region: hemK_fam; TIGR00536 339670006502 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670006503 S-adenosylmethionine binding site [chemical binding]; other site 339670006504 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 339670006505 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 339670006506 putative active site [active] 339670006507 catalytic site [active] 339670006508 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 339670006509 putative active site [active] 339670006510 catalytic site [active] 339670006511 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 339670006512 catalytic residues [active] 339670006513 dimer interface [polypeptide binding]; other site 339670006514 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 339670006515 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 339670006516 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 339670006517 ABC transporter; Region: ABC_tran_2; pfam12848 339670006518 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 339670006519 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 339670006520 DNA repair protein RadA; Provisional; Region: PRK11823 339670006521 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 339670006522 Walker A motif/ATP binding site; other site 339670006523 ATP binding site [chemical binding]; other site 339670006524 Walker B motif; other site 339670006525 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 339670006526 alanine racemase; Reviewed; Region: alr; PRK00053 339670006527 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 339670006528 active site 339670006529 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 339670006530 substrate binding site [chemical binding]; other site 339670006531 catalytic residues [active] 339670006532 dimer interface [polypeptide binding]; other site 339670006533 lysophospholipid transporter LplT; Provisional; Region: PRK11195 339670006534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670006535 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 339670006536 dimer interface [polypeptide binding]; other site 339670006537 substrate binding site [chemical binding]; other site 339670006538 ATP binding site [chemical binding]; other site 339670006539 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 339670006540 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 339670006541 Fe-S cluster binding site [ion binding]; other site 339670006542 active site 339670006543 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 339670006544 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670006545 Coenzyme A binding pocket [chemical binding]; other site 339670006546 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 339670006547 Glycoprotease family; Region: Peptidase_M22; pfam00814 339670006548 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 339670006549 acyl-CoA binding pocket [chemical binding]; other site 339670006550 CoA binding site [chemical binding]; other site 339670006551 helicase 45; Provisional; Region: PTZ00424 339670006552 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 339670006553 ATP binding site [chemical binding]; other site 339670006554 Mg++ binding site [ion binding]; other site 339670006555 motif III; other site 339670006556 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670006557 nucleotide binding region [chemical binding]; other site 339670006558 ATP-binding site [chemical binding]; other site 339670006559 isocitrate lyase; Provisional; Region: PRK15063 339670006560 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 339670006561 tetramer interface [polypeptide binding]; other site 339670006562 active site 339670006563 Mg2+/Mn2+ binding site [ion binding]; other site 339670006564 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670006565 Ligand Binding Site [chemical binding]; other site 339670006566 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670006567 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670006568 putative effector binding pocket; other site 339670006569 dimerization interface [polypeptide binding]; other site 339670006570 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 339670006571 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670006572 motif II; other site 339670006573 malate synthase A; Region: malate_syn_A; TIGR01344 339670006574 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 339670006575 active site 339670006576 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 339670006577 putative active site pocket [active] 339670006578 dimerization interface [polypeptide binding]; other site 339670006579 putative catalytic residue [active] 339670006580 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670006581 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670006582 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670006583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670006584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670006585 Coenzyme A binding pocket [chemical binding]; other site 339670006586 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 339670006587 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 339670006588 active site 339670006589 HIGH motif; other site 339670006590 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 339670006591 active site 339670006592 KMSKS motif; other site 339670006593 hypothetical protein; Provisional; Region: PRK10279 339670006594 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 339670006595 nucleophile elbow; other site 339670006596 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 339670006597 NlpC/P60 family; Region: NLPC_P60; pfam00877 339670006598 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 339670006599 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670006600 Walker A/P-loop; other site 339670006601 ATP binding site [chemical binding]; other site 339670006602 Q-loop/lid; other site 339670006603 ABC transporter signature motif; other site 339670006604 Walker B; other site 339670006605 D-loop; other site 339670006606 H-loop/switch region; other site 339670006607 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 339670006608 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670006609 Walker A/P-loop; other site 339670006610 ATP binding site [chemical binding]; other site 339670006611 Q-loop/lid; other site 339670006612 ABC transporter signature motif; other site 339670006613 Walker B; other site 339670006614 D-loop; other site 339670006615 H-loop/switch region; other site 339670006616 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 339670006617 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 339670006618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670006619 dimer interface [polypeptide binding]; other site 339670006620 conserved gate region; other site 339670006621 putative PBP binding loops; other site 339670006622 ABC-ATPase subunit interface; other site 339670006623 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 339670006624 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670006625 dimer interface [polypeptide binding]; other site 339670006626 conserved gate region; other site 339670006627 putative PBP binding loops; other site 339670006628 ABC-ATPase subunit interface; other site 339670006629 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 339670006630 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 339670006631 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 339670006632 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 339670006633 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670006634 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670006635 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670006636 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670006637 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670006638 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 339670006639 DNA binding site [nucleotide binding] 339670006640 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 339670006641 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670006642 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670006643 dimer interface [polypeptide binding]; other site 339670006644 phosphorylation site [posttranslational modification] 339670006645 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670006646 ATP binding site [chemical binding]; other site 339670006647 Mg2+ binding site [ion binding]; other site 339670006648 G-X-G motif; other site 339670006649 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670006650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670006651 active site 339670006652 phosphorylation site [posttranslational modification] 339670006653 intermolecular recognition site; other site 339670006654 dimerization interface [polypeptide binding]; other site 339670006655 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670006656 DNA binding site [nucleotide binding] 339670006657 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670006658 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 339670006659 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 339670006660 Subunit I/III interface [polypeptide binding]; other site 339670006661 Subunit III/IV interface [polypeptide binding]; other site 339670006662 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 339670006663 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 339670006664 D-pathway; other site 339670006665 Putative ubiquinol binding site [chemical binding]; other site 339670006666 Low-spin heme (heme b) binding site [chemical binding]; other site 339670006667 Putative water exit pathway; other site 339670006668 Binuclear center (heme o3/CuB) [ion binding]; other site 339670006669 K-pathway; other site 339670006670 Putative proton exit pathway; other site 339670006671 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 339670006672 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 339670006673 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 339670006674 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 339670006675 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 339670006676 aspartate kinase; Reviewed; Region: PRK06635 339670006677 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 339670006678 putative nucleotide binding site [chemical binding]; other site 339670006679 putative catalytic residues [active] 339670006680 putative Mg ion binding site [ion binding]; other site 339670006681 putative aspartate binding site [chemical binding]; other site 339670006682 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 339670006683 putative allosteric regulatory site; other site 339670006684 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 339670006685 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 339670006686 Ligand Binding Site [chemical binding]; other site 339670006687 TilS substrate binding domain; Region: TilS; pfam09179 339670006688 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 339670006689 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 339670006690 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 339670006691 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 339670006692 endonuclease III; Region: ENDO3c; smart00478 339670006693 minor groove reading motif; other site 339670006694 helix-hairpin-helix signature motif; other site 339670006695 substrate binding pocket [chemical binding]; other site 339670006696 active site 339670006697 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 339670006698 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 339670006699 active site 339670006700 HIGH motif; other site 339670006701 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 339670006702 KMSKS motif; other site 339670006703 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 339670006704 tRNA binding surface [nucleotide binding]; other site 339670006705 anticodon binding site; other site 339670006706 TPR repeat; Region: TPR_11; pfam13414 339670006707 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670006708 binding surface 339670006709 TPR motif; other site 339670006710 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 339670006711 substrate binding site [chemical binding]; other site 339670006712 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 339670006713 substrate binding site [chemical binding]; other site 339670006714 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 339670006715 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 339670006716 putative active site [active] 339670006717 putative metal binding site [ion binding]; other site 339670006718 serine O-acetyltransferase; Region: cysE; TIGR01172 339670006719 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 339670006720 trimer interface [polypeptide binding]; other site 339670006721 active site 339670006722 substrate binding site [chemical binding]; other site 339670006723 CoA binding site [chemical binding]; other site 339670006724 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 339670006725 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 339670006726 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 339670006727 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 339670006728 active site 339670006729 dimerization interface [polypeptide binding]; other site 339670006730 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 339670006731 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670006732 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670006733 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670006734 dimer interface [polypeptide binding]; other site 339670006735 phosphorylation site [posttranslational modification] 339670006736 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670006737 ATP binding site [chemical binding]; other site 339670006738 Mg2+ binding site [ion binding]; other site 339670006739 G-X-G motif; other site 339670006740 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 339670006741 MutS domain I; Region: MutS_I; pfam01624 339670006742 MutS domain II; Region: MutS_II; pfam05188 339670006743 MutS domain III; Region: MutS_III; pfam05192 339670006744 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 339670006745 Walker A/P-loop; other site 339670006746 ATP binding site [chemical binding]; other site 339670006747 Q-loop/lid; other site 339670006748 ABC transporter signature motif; other site 339670006749 Walker B; other site 339670006750 D-loop; other site 339670006751 H-loop/switch region; other site 339670006752 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 339670006753 Uncharacterized conserved protein [Function unknown]; Region: COG2850 339670006754 Cupin domain; Region: Cupin_2; cl17218 339670006755 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 339670006756 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 339670006757 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 339670006758 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 339670006759 dihydrodipicolinate synthase; Region: dapA; TIGR00674 339670006760 dimer interface [polypeptide binding]; other site 339670006761 active site 339670006762 catalytic residue [active] 339670006763 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 339670006764 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 339670006765 active site 339670006766 HIGH motif; other site 339670006767 dimer interface [polypeptide binding]; other site 339670006768 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 339670006769 active site 339670006770 KMSKS motif; other site 339670006771 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 339670006772 Peptidase family M50; Region: Peptidase_M50; pfam02163 339670006773 active site 339670006774 putative substrate binding region [chemical binding]; other site 339670006775 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 339670006776 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 339670006777 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 339670006778 active site 339670006779 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 339670006780 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670006781 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670006782 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 339670006783 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 339670006784 dinuclear metal binding motif [ion binding]; other site 339670006785 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 339670006786 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 339670006787 trimer interface [polypeptide binding]; other site 339670006788 putative metal binding site [ion binding]; other site 339670006789 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 339670006790 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 339670006791 dimerization interface [polypeptide binding]; other site 339670006792 domain crossover interface; other site 339670006793 redox-dependent activation switch; other site 339670006794 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 339670006795 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 339670006796 enolase; Provisional; Region: eno; PRK00077 339670006797 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 339670006798 dimer interface [polypeptide binding]; other site 339670006799 metal binding site [ion binding]; metal-binding site 339670006800 substrate binding pocket [chemical binding]; other site 339670006801 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 339670006802 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 339670006803 CTP synthetase; Validated; Region: pyrG; PRK05380 339670006804 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 339670006805 Catalytic site [active] 339670006806 active site 339670006807 UTP binding site [chemical binding]; other site 339670006808 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 339670006809 active site 339670006810 putative oxyanion hole; other site 339670006811 catalytic triad [active] 339670006812 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670006813 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 339670006814 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 339670006815 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 339670006816 Competence protein; Region: Competence; pfam03772 339670006817 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 339670006818 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 339670006819 active site 339670006820 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 339670006821 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 339670006822 Walker A/P-loop; other site 339670006823 ATP binding site [chemical binding]; other site 339670006824 Q-loop/lid; other site 339670006825 ABC transporter signature motif; other site 339670006826 Walker B; other site 339670006827 D-loop; other site 339670006828 H-loop/switch region; other site 339670006829 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 339670006830 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 339670006831 FtsX-like permease family; Region: FtsX; pfam02687 339670006832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 339670006833 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 339670006834 DHH family; Region: DHH; pfam01368 339670006835 DHHA1 domain; Region: DHHA1; pfam02272 339670006836 peptide chain release factor 2; Validated; Region: prfB; PRK00578 339670006837 This domain is found in peptide chain release factors; Region: PCRF; smart00937 339670006838 RF-1 domain; Region: RF-1; pfam00472 339670006839 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 339670006840 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 339670006841 dimer interface [polypeptide binding]; other site 339670006842 putative anticodon binding site; other site 339670006843 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 339670006844 motif 1; other site 339670006845 active site 339670006846 motif 2; other site 339670006847 motif 3; other site 339670006848 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 339670006849 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 339670006850 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670006851 catalytic loop [active] 339670006852 iron binding site [ion binding]; other site 339670006853 chaperone protein HscA; Provisional; Region: hscA; PRK05183 339670006854 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 339670006855 nucleotide binding site [chemical binding]; other site 339670006856 putative NEF/HSP70 interaction site [polypeptide binding]; other site 339670006857 SBD interface [polypeptide binding]; other site 339670006858 co-chaperone HscB; Provisional; Region: hscB; PRK03578 339670006859 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 339670006860 HSP70 interaction site [polypeptide binding]; other site 339670006861 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 339670006862 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 339670006863 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 339670006864 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 339670006865 trimerization site [polypeptide binding]; other site 339670006866 active site 339670006867 cysteine desulfurase; Provisional; Region: PRK14012 339670006868 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 339670006869 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670006870 catalytic residue [active] 339670006871 Predicted transcriptional regulator [Transcription]; Region: COG1959 339670006872 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 339670006873 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 339670006874 Low molecular weight phosphatase family; Region: LMWPc; cd00115 339670006875 active site 339670006876 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 339670006877 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 339670006878 4Fe-4S binding domain; Region: Fer4; pfam00037 339670006879 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 339670006880 Cysteine-rich domain; Region: CCG; pfam02754 339670006881 Cysteine-rich domain; Region: CCG; pfam02754 339670006882 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670006883 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670006884 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670006885 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 339670006886 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 339670006887 Phasin protein; Region: Phasin_2; pfam09361 339670006888 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 339670006889 E3 interaction surface; other site 339670006890 lipoyl attachment site [posttranslational modification]; other site 339670006891 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 339670006892 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670006893 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 339670006894 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 339670006895 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 339670006896 E3 interaction surface; other site 339670006897 lipoyl attachment site [posttranslational modification]; other site 339670006898 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 339670006899 E3 interaction surface; other site 339670006900 lipoyl attachment site [posttranslational modification]; other site 339670006901 e3 binding domain; Region: E3_binding; pfam02817 339670006902 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 339670006903 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 339670006904 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 339670006905 dimer interface [polypeptide binding]; other site 339670006906 TPP-binding site [chemical binding]; other site 339670006907 PAS domain S-box; Region: sensory_box; TIGR00229 339670006908 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670006909 putative active site [active] 339670006910 heme pocket [chemical binding]; other site 339670006911 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670006912 dimer interface [polypeptide binding]; other site 339670006913 phosphorylation site [posttranslational modification] 339670006914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670006915 ATP binding site [chemical binding]; other site 339670006916 Mg2+ binding site [ion binding]; other site 339670006917 G-X-G motif; other site 339670006918 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 339670006919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670006920 active site 339670006921 phosphorylation site [posttranslational modification] 339670006922 intermolecular recognition site; other site 339670006923 dimerization interface [polypeptide binding]; other site 339670006924 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670006925 DNA binding residues [nucleotide binding] 339670006926 dimerization interface [polypeptide binding]; other site 339670006927 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 339670006928 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 339670006929 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 339670006930 homodimer interface [polypeptide binding]; other site 339670006931 NADP binding site [chemical binding]; other site 339670006932 substrate binding site [chemical binding]; other site 339670006933 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 339670006934 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 339670006935 active site 339670006936 Zn binding site [ion binding]; other site 339670006937 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 339670006938 active site 339670006939 DNA polymerase IV; Validated; Region: PRK02406 339670006940 DNA binding site [nucleotide binding] 339670006941 aspartate racemase; Region: asp_race; TIGR00035 339670006942 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 339670006943 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 339670006944 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 339670006945 putative catalytic site [active] 339670006946 putative phosphate binding site [ion binding]; other site 339670006947 active site 339670006948 metal binding site A [ion binding]; metal-binding site 339670006949 DNA binding site [nucleotide binding] 339670006950 putative AP binding site [nucleotide binding]; other site 339670006951 putative metal binding site B [ion binding]; other site 339670006952 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 339670006953 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670006954 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 339670006955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670006956 active site 339670006957 phosphorylation site [posttranslational modification] 339670006958 intermolecular recognition site; other site 339670006959 dimerization interface [polypeptide binding]; other site 339670006960 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670006961 Walker A motif; other site 339670006962 ATP binding site [chemical binding]; other site 339670006963 Walker B motif; other site 339670006964 arginine finger; other site 339670006965 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670006966 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 339670006967 PAS domain; Region: PAS; smart00091 339670006968 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670006969 dimer interface [polypeptide binding]; other site 339670006970 phosphorylation site [posttranslational modification] 339670006971 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670006972 ATP binding site [chemical binding]; other site 339670006973 Mg2+ binding site [ion binding]; other site 339670006974 G-X-G motif; other site 339670006975 glutamine synthetase; Provisional; Region: glnA; PRK09469 339670006976 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 339670006977 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 339670006978 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 339670006979 active site residue [active] 339670006980 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 339670006981 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 339670006982 putative MPT binding site; other site 339670006983 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 339670006984 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 339670006985 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 339670006986 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 339670006987 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 339670006988 putative Mg++ binding site [ion binding]; other site 339670006989 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670006990 nucleotide binding region [chemical binding]; other site 339670006991 ATP-binding site [chemical binding]; other site 339670006992 Helicase associated domain (HA2); Region: HA2; pfam04408 339670006993 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 339670006994 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 339670006995 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 339670006996 N-acetylglutamate synthase; Validated; Region: PRK05279 339670006997 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 339670006998 putative feedback inhibition sensing region; other site 339670006999 putative nucleotide binding site [chemical binding]; other site 339670007000 putative substrate binding site [chemical binding]; other site 339670007001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670007002 Coenzyme A binding pocket [chemical binding]; other site 339670007003 oxidative damage protection protein; Provisional; Region: PRK05408 339670007004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670007005 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670007006 putative substrate translocation pore; other site 339670007007 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670007008 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670007009 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670007010 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670007011 active site 339670007012 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 339670007013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007014 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670007015 dimerization interface [polypeptide binding]; other site 339670007016 putative aminotransferase; Validated; Region: PRK07480 339670007017 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670007018 inhibitor-cofactor binding pocket; inhibition site 339670007019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670007020 catalytic residue [active] 339670007021 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 339670007022 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 339670007023 Peptidase C26; Region: Peptidase_C26; pfam07722 339670007024 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 339670007025 catalytic triad [active] 339670007026 N-formylglutamate amidohydrolase; Region: FGase; cl01522 339670007027 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 339670007028 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 339670007029 active site 339670007030 imidazolonepropionase; Validated; Region: PRK09356 339670007031 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 339670007032 active site 339670007033 HutD; Region: HutD; pfam05962 339670007034 urocanate hydratase; Provisional; Region: PRK05414 339670007035 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 339670007036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670007037 DNA-binding site [nucleotide binding]; DNA binding site 339670007038 UTRA domain; Region: UTRA; pfam07702 339670007039 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 339670007040 active sites [active] 339670007041 tetramer interface [polypeptide binding]; other site 339670007042 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670007043 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670007044 substrate binding pocket [chemical binding]; other site 339670007045 membrane-bound complex binding site; other site 339670007046 hinge residues; other site 339670007047 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 339670007048 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 339670007049 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 339670007050 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670007051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007052 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670007053 dimerization interface [polypeptide binding]; other site 339670007054 substrate binding pocket [chemical binding]; other site 339670007055 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670007056 putative substrate translocation pore; other site 339670007057 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670007058 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 339670007059 DNA photolyase; Region: DNA_photolyase; pfam00875 339670007060 classical (c) SDRs; Region: SDR_c; cd05233 339670007061 active site 339670007062 D-galactonate transporter; Region: 2A0114; TIGR00893 339670007063 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670007064 putative substrate translocation pore; other site 339670007065 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 339670007066 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670007067 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670007068 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670007069 Fatty acid desaturase; Region: FA_desaturase; pfam00487 339670007070 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 339670007071 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 339670007072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 339670007073 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 339670007074 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 339670007075 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 339670007076 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 339670007077 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 339670007078 PAAR motif; Region: PAAR_motif; pfam05488 339670007079 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 339670007080 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 339670007081 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 339670007082 acetyl-CoA synthetase; Provisional; Region: PRK00174 339670007083 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 339670007084 active site 339670007085 CoA binding site [chemical binding]; other site 339670007086 acyl-activating enzyme (AAE) consensus motif; other site 339670007087 AMP binding site [chemical binding]; other site 339670007088 acetate binding site [chemical binding]; other site 339670007089 EamA-like transporter family; Region: EamA; pfam00892 339670007090 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 339670007091 EamA-like transporter family; Region: EamA; pfam00892 339670007092 hypothetical protein; Provisional; Region: PRK05208 339670007093 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 339670007094 Fumarase C-terminus; Region: Fumerase_C; pfam05683 339670007095 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 339670007096 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 339670007097 heme binding site [chemical binding]; other site 339670007098 ferroxidase pore; other site 339670007099 ferroxidase diiron center [ion binding]; other site 339670007100 glutamate racemase; Provisional; Region: PRK00865 339670007101 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 339670007102 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 339670007103 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 339670007104 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 339670007105 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 339670007106 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 339670007107 LysR family transcriptional regulator; Provisional; Region: PRK14997 339670007108 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007109 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 339670007110 putative effector binding pocket; other site 339670007111 putative dimerization interface [polypeptide binding]; other site 339670007112 Pirin-related protein [General function prediction only]; Region: COG1741 339670007113 Pirin; Region: Pirin; pfam02678 339670007114 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 339670007115 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 339670007116 putative hydrophobic ligand binding site [chemical binding]; other site 339670007117 Hemin uptake protein hemP; Region: hemP; pfam10636 339670007118 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 339670007119 4Fe-4S binding domain; Region: Fer4_5; pfam12801 339670007120 Iron permease FTR1 family; Region: FTR1; cl00475 339670007121 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 339670007122 Fe2+ transport protein; Region: Iron_transport; pfam10634 339670007123 excinuclease ABC subunit B; Provisional; Region: PRK05298 339670007124 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 339670007125 ATP binding site [chemical binding]; other site 339670007126 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670007127 nucleotide binding region [chemical binding]; other site 339670007128 ATP-binding site [chemical binding]; other site 339670007129 Ultra-violet resistance protein B; Region: UvrB; pfam12344 339670007130 UvrB/uvrC motif; Region: UVR; pfam02151 339670007131 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 339670007132 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670007133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670007134 homodimer interface [polypeptide binding]; other site 339670007135 catalytic residue [active] 339670007136 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 339670007137 classical (c) SDRs; Region: SDR_c; cd05233 339670007138 NAD(P) binding site [chemical binding]; other site 339670007139 active site 339670007140 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670007141 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 339670007142 active site 339670007143 catalytic tetrad [active] 339670007144 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 339670007145 Sec24-related protein; Provisional; Region: PTZ00395 339670007146 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 339670007147 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 339670007148 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 339670007149 DNA binding residues [nucleotide binding] 339670007150 dimer interface [polypeptide binding]; other site 339670007151 copper binding site [ion binding]; other site 339670007152 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 339670007153 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670007154 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670007155 DNA binding residues [nucleotide binding] 339670007156 Predicted membrane protein [Function unknown]; Region: COG3235 339670007157 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 339670007158 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 339670007159 putative active site [active] 339670007160 Zn binding site [ion binding]; other site 339670007161 hypothetical protein; Validated; Region: PRK02101 339670007162 PIN domain; Region: PIN_3; pfam13470 339670007163 methionine aminotransferase; Validated; Region: PRK09082 339670007164 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670007165 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670007166 homodimer interface [polypeptide binding]; other site 339670007167 catalytic residue [active] 339670007168 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670007169 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 339670007170 C-terminal domain interface [polypeptide binding]; other site 339670007171 GSH binding site (G-site) [chemical binding]; other site 339670007172 dimer interface [polypeptide binding]; other site 339670007173 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 339670007174 putative N-terminal domain interface [polypeptide binding]; other site 339670007175 putative dimer interface [polypeptide binding]; other site 339670007176 putative substrate binding pocket (H-site) [chemical binding]; other site 339670007177 enoyl-CoA hydratase; Provisional; Region: PRK07511 339670007178 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670007179 substrate binding site [chemical binding]; other site 339670007180 oxyanion hole (OAH) forming residues; other site 339670007181 trimer interface [polypeptide binding]; other site 339670007182 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 339670007183 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 339670007184 C-terminal domain interface [polypeptide binding]; other site 339670007185 GSH binding site (G-site) [chemical binding]; other site 339670007186 dimer interface [polypeptide binding]; other site 339670007187 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 339670007188 N-terminal domain interface [polypeptide binding]; other site 339670007189 putative dimer interface [polypeptide binding]; other site 339670007190 active site 339670007191 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 339670007192 putative active site [active] 339670007193 putative catalytic site [active] 339670007194 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 339670007195 putative active site [active] 339670007196 putative catalytic site [active] 339670007197 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 339670007198 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 339670007199 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 339670007200 active site 339670007201 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 339670007202 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 339670007203 FAD binding site [chemical binding]; other site 339670007204 substrate binding site [chemical binding]; other site 339670007205 catalytic base [active] 339670007206 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 339670007207 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 339670007208 dimer interface [polypeptide binding]; other site 339670007209 ADP-ribose binding site [chemical binding]; other site 339670007210 active site 339670007211 nudix motif; other site 339670007212 metal binding site [ion binding]; metal-binding site 339670007213 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 339670007214 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 339670007215 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 339670007216 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 339670007217 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 339670007218 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 339670007219 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 339670007220 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 339670007221 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 339670007222 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 339670007223 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 339670007224 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 339670007225 4Fe-4S binding domain; Region: Fer4; cl02805 339670007226 4Fe-4S binding domain; Region: Fer4; pfam00037 339670007227 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 339670007228 NADH dehydrogenase subunit G; Validated; Region: PRK09129 339670007229 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670007230 catalytic loop [active] 339670007231 iron binding site [ion binding]; other site 339670007232 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 339670007233 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 339670007234 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 339670007235 SLBB domain; Region: SLBB; pfam10531 339670007236 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 339670007237 NADH dehydrogenase subunit E; Validated; Region: PRK07539 339670007238 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 339670007239 putative dimer interface [polypeptide binding]; other site 339670007240 [2Fe-2S] cluster binding site [ion binding]; other site 339670007241 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 339670007242 NADH dehydrogenase subunit D; Validated; Region: PRK06075 339670007243 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 339670007244 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 339670007245 NADH dehydrogenase subunit B; Validated; Region: PRK06411 339670007246 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 339670007247 Preprotein translocase SecG subunit; Region: SecG; pfam03840 339670007248 triosephosphate isomerase; Provisional; Region: PRK14567 339670007249 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 339670007250 substrate binding site [chemical binding]; other site 339670007251 dimer interface [polypeptide binding]; other site 339670007252 catalytic triad [active] 339670007253 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 339670007254 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 339670007255 NAD(P) binding site [chemical binding]; other site 339670007256 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 339670007257 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 339670007258 RNase E interface [polypeptide binding]; other site 339670007259 trimer interface [polypeptide binding]; other site 339670007260 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 339670007261 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 339670007262 RNase E interface [polypeptide binding]; other site 339670007263 trimer interface [polypeptide binding]; other site 339670007264 active site 339670007265 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 339670007266 putative nucleic acid binding region [nucleotide binding]; other site 339670007267 G-X-X-G motif; other site 339670007268 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 339670007269 RNA binding site [nucleotide binding]; other site 339670007270 domain interface; other site 339670007271 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 339670007272 16S/18S rRNA binding site [nucleotide binding]; other site 339670007273 S13e-L30e interaction site [polypeptide binding]; other site 339670007274 25S rRNA binding site [nucleotide binding]; other site 339670007275 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 339670007276 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 339670007277 putative ligand binding site [chemical binding]; other site 339670007278 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 339670007279 active site clefts [active] 339670007280 zinc binding site [ion binding]; other site 339670007281 dimer interface [polypeptide binding]; other site 339670007282 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 339670007283 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 339670007284 Sulfate transporter family; Region: Sulfate_transp; pfam00916 339670007285 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 339670007286 2-isopropylmalate synthase; Validated; Region: PRK00915 339670007287 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 339670007288 active site 339670007289 catalytic residues [active] 339670007290 metal binding site [ion binding]; metal-binding site 339670007291 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 339670007292 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 339670007293 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 339670007294 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 339670007295 ketol-acid reductoisomerase; Provisional; Region: PRK05479 339670007296 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 339670007297 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 339670007298 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 339670007299 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 339670007300 putative valine binding site [chemical binding]; other site 339670007301 dimer interface [polypeptide binding]; other site 339670007302 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 339670007303 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 339670007304 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 339670007305 PYR/PP interface [polypeptide binding]; other site 339670007306 dimer interface [polypeptide binding]; other site 339670007307 TPP binding site [chemical binding]; other site 339670007308 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 339670007309 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 339670007310 TPP-binding site [chemical binding]; other site 339670007311 dimer interface [polypeptide binding]; other site 339670007312 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670007313 RNA polymerase factor sigma-70; Validated; Region: PRK09047 339670007314 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670007315 DNA binding residues [nucleotide binding] 339670007316 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 339670007317 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 339670007318 RDD family; Region: RDD; pfam06271 339670007319 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 339670007320 putative active site [active] 339670007321 putative metal binding site [ion binding]; other site 339670007322 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670007323 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 339670007324 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 339670007325 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670007326 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670007327 Bacterial transcriptional repressor; Region: TetR; pfam13972 339670007328 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 339670007329 glucose-1-dehydrogenase; Provisional; Region: PRK06947 339670007330 classical (c) SDRs; Region: SDR_c; cd05233 339670007331 NAD(P) binding site [chemical binding]; other site 339670007332 active site 339670007333 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 339670007334 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 339670007335 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 339670007336 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 339670007337 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 339670007338 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 339670007339 apolar tunnel; other site 339670007340 heme binding site [chemical binding]; other site 339670007341 dimerization interface [polypeptide binding]; other site 339670007342 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 339670007343 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 339670007344 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 339670007345 Domain of unknown function (DUF333); Region: DUF333; pfam03891 339670007346 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 339670007347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670007348 active site 339670007349 phosphorylation site [posttranslational modification] 339670007350 intermolecular recognition site; other site 339670007351 dimerization interface [polypeptide binding]; other site 339670007352 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670007353 DNA binding site [nucleotide binding] 339670007354 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 339670007355 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 339670007356 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 339670007357 Ligand Binding Site [chemical binding]; other site 339670007358 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 339670007359 GAF domain; Region: GAF_3; pfam13492 339670007360 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670007361 dimer interface [polypeptide binding]; other site 339670007362 phosphorylation site [posttranslational modification] 339670007363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670007364 ATP binding site [chemical binding]; other site 339670007365 Mg2+ binding site [ion binding]; other site 339670007366 G-X-G motif; other site 339670007367 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 339670007368 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 339670007369 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 339670007370 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 339670007371 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 339670007372 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 339670007373 NADP binding site [chemical binding]; other site 339670007374 dimer interface [polypeptide binding]; other site 339670007375 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 339670007376 substrate binding site [chemical binding]; other site 339670007377 short chain dehydrogenase; Provisional; Region: PRK08339 339670007378 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 339670007379 putative NAD(P) binding site [chemical binding]; other site 339670007380 putative active site [active] 339670007381 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670007382 active site 339670007383 hypothetical protein; Validated; Region: PRK00110 339670007384 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 339670007385 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 339670007386 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 339670007387 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 339670007388 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 339670007389 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 339670007390 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 339670007391 active site 339670007392 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 339670007393 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 339670007394 Maf-like protein; Region: Maf; pfam02545 339670007395 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 339670007396 active site 339670007397 dimer interface [polypeptide binding]; other site 339670007398 ribonuclease G; Provisional; Region: PRK11712 339670007399 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 339670007400 homodimer interface [polypeptide binding]; other site 339670007401 oligonucleotide binding site [chemical binding]; other site 339670007402 Protein with unknown function (DUF469); Region: DUF469; pfam04320 339670007403 PRC-barrel domain; Region: PRC; pfam05239 339670007404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670007405 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670007406 putative substrate translocation pore; other site 339670007407 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 339670007408 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 339670007409 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 339670007410 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 339670007411 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 339670007412 Walker A/P-loop; other site 339670007413 ATP binding site [chemical binding]; other site 339670007414 Q-loop/lid; other site 339670007415 ABC transporter signature motif; other site 339670007416 Walker B; other site 339670007417 D-loop; other site 339670007418 H-loop/switch region; other site 339670007419 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 339670007420 putative metal binding site; other site 339670007421 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 339670007422 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 339670007423 active site 339670007424 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 339670007425 O-Antigen ligase; Region: Wzy_C; pfam04932 339670007426 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 339670007427 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 339670007428 putative active site [active] 339670007429 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 339670007430 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670007431 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670007432 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 339670007433 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 339670007434 putative active site [active] 339670007435 putative PHP Thumb interface [polypeptide binding]; other site 339670007436 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 339670007437 generic binding surface II; other site 339670007438 generic binding surface I; other site 339670007439 rhodanese superfamily protein; Provisional; Region: PRK05320 339670007440 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 339670007441 active site residue [active] 339670007442 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 339670007443 active site 339670007444 HIGH motif; other site 339670007445 nucleotide binding site [chemical binding]; other site 339670007446 active site 339670007447 KMSKS motif; other site 339670007448 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 339670007449 DEAD-like helicases superfamily; Region: DEXDc; smart00487 339670007450 ATP binding site [chemical binding]; other site 339670007451 Mg++ binding site [ion binding]; other site 339670007452 motif III; other site 339670007453 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670007454 nucleotide binding region [chemical binding]; other site 339670007455 ATP-binding site [chemical binding]; other site 339670007456 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 339670007457 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 339670007458 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 339670007459 NAD binding site [chemical binding]; other site 339670007460 ATP-grasp domain; Region: ATP-grasp; pfam02222 339670007461 META domain; Region: META; pfam03724 339670007462 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 339670007463 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 339670007464 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 339670007465 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 339670007466 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 339670007467 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 339670007468 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 339670007469 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 339670007470 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670007471 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670007472 ferredoxin; Provisional; Region: PRK06991 339670007473 Putative Fe-S cluster; Region: FeS; pfam04060 339670007474 4Fe-4S binding domain; Region: Fer4; pfam00037 339670007475 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 339670007476 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 339670007477 minor groove reading motif; other site 339670007478 helix-hairpin-helix signature motif; other site 339670007479 substrate binding pocket [chemical binding]; other site 339670007480 active site 339670007481 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 339670007482 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 339670007483 EamA-like transporter family; Region: EamA; pfam00892 339670007484 EamA-like transporter family; Region: EamA; pfam00892 339670007485 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 339670007486 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670007487 Cytochrome c553 [Energy production and conversion]; Region: COG2863 339670007488 Cytochrome c; Region: Cytochrom_C; cl11414 339670007489 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 339670007490 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670007491 Walker A motif; other site 339670007492 ATP binding site [chemical binding]; other site 339670007493 Walker B motif; other site 339670007494 arginine finger; other site 339670007495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 339670007496 Benzoate membrane transport protein; Region: BenE; pfam03594 339670007497 benzoate transporter; Region: benE; TIGR00843 339670007498 transaldolase-like protein; Provisional; Region: PTZ00411 339670007499 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 339670007500 active site 339670007501 dimer interface [polypeptide binding]; other site 339670007502 catalytic residue [active] 339670007503 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 339670007504 dimer interface [polypeptide binding]; other site 339670007505 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670007506 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 339670007507 Na binding site [ion binding]; other site 339670007508 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 339670007509 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 339670007510 Helix-turn-helix domain; Region: HTH_37; pfam13744 339670007511 sequence-specific DNA binding site [nucleotide binding]; other site 339670007512 salt bridge; other site 339670007513 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 339670007514 putative active site [active] 339670007515 Chorismate lyase; Region: Chor_lyase; cl01230 339670007516 heat shock protein 90; Provisional; Region: PRK05218 339670007517 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670007518 ATP binding site [chemical binding]; other site 339670007519 Mg2+ binding site [ion binding]; other site 339670007520 G-X-G motif; other site 339670007521 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670007522 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670007523 DNA-binding site [nucleotide binding]; DNA binding site 339670007524 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670007525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670007526 homodimer interface [polypeptide binding]; other site 339670007527 catalytic residue [active] 339670007528 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 339670007529 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 339670007530 EamA-like transporter family; Region: EamA; pfam00892 339670007531 EamA-like transporter family; Region: EamA; pfam00892 339670007532 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 339670007533 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670007534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670007535 homodimer interface [polypeptide binding]; other site 339670007536 catalytic residue [active] 339670007537 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 339670007538 homotrimer interaction site [polypeptide binding]; other site 339670007539 putative active site [active] 339670007540 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 339670007541 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 339670007542 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670007543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670007544 metal binding site [ion binding]; metal-binding site 339670007545 active site 339670007546 I-site; other site 339670007547 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670007548 Chromate transporter; Region: Chromate_transp; pfam02417 339670007549 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 339670007550 Chromate transporter; Region: Chromate_transp; pfam02417 339670007551 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 339670007552 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 339670007553 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670007554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007555 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670007556 dimerization interface [polypeptide binding]; other site 339670007557 Predicted integral membrane protein [Function unknown]; Region: COG5615 339670007558 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 339670007559 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 339670007560 CAP-like domain; other site 339670007561 active site 339670007562 primary dimer interface [polypeptide binding]; other site 339670007563 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 339670007564 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 339670007565 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670007566 ATP binding site [chemical binding]; other site 339670007567 Mg2+ binding site [ion binding]; other site 339670007568 G-X-G motif; other site 339670007569 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 339670007570 anchoring element; other site 339670007571 dimer interface [polypeptide binding]; other site 339670007572 ATP binding site [chemical binding]; other site 339670007573 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 339670007574 active site 339670007575 metal binding site [ion binding]; metal-binding site 339670007576 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 339670007577 ABC transporter ATPase component; Reviewed; Region: PRK11147 339670007578 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670007579 Walker A/P-loop; other site 339670007580 ATP binding site [chemical binding]; other site 339670007581 Q-loop/lid; other site 339670007582 ABC transporter signature motif; other site 339670007583 Walker B; other site 339670007584 D-loop; other site 339670007585 H-loop/switch region; other site 339670007586 ABC transporter; Region: ABC_tran_2; pfam12848 339670007587 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 339670007588 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 339670007589 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 339670007590 Rubredoxin; Region: Rubredoxin; pfam00301 339670007591 iron binding site [ion binding]; other site 339670007592 integrase; Provisional; Region: PRK09692 339670007593 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 339670007594 active site 339670007595 Int/Topo IB signature motif; other site 339670007596 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670007597 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 339670007598 Transcriptional Coactivator p15 (PC4); Region: PC4; pfam02229 339670007599 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 339670007600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 339670007601 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 339670007602 active site 339670007603 metal binding site [ion binding]; metal-binding site 339670007604 interdomain interaction site; other site 339670007605 AAA domain; Region: AAA_25; pfam13481 339670007606 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 339670007607 Walker A motif; other site 339670007608 ATP binding site [chemical binding]; other site 339670007609 Walker B motif; other site 339670007610 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 339670007611 dimer interface [polypeptide binding]; other site 339670007612 ssDNA binding site [nucleotide binding]; other site 339670007613 tetramer (dimer of dimers) interface [polypeptide binding]; other site 339670007614 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 339670007615 active site 339670007616 catalytic residues [active] 339670007617 DNA binding site [nucleotide binding] 339670007618 Int/Topo IB signature motif; other site 339670007619 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 339670007620 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 339670007621 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 339670007622 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670007623 ATP binding site [chemical binding]; other site 339670007624 Mg2+ binding site [ion binding]; other site 339670007625 G-X-G motif; other site 339670007626 integrase; Provisional; Region: PRK09692 339670007627 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 339670007628 active site 339670007629 Int/Topo IB signature motif; other site 339670007630 Domain of unknown function (DUF927); Region: DUF927; cl12098 339670007631 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 339670007632 multiple promoter invertase; Provisional; Region: mpi; PRK13413 339670007633 catalytic residues [active] 339670007634 catalytic nucleophile [active] 339670007635 Presynaptic Site I dimer interface [polypeptide binding]; other site 339670007636 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 339670007637 Synaptic Flat tetramer interface [polypeptide binding]; other site 339670007638 Synaptic Site I dimer interface [polypeptide binding]; other site 339670007639 DNA binding site [nucleotide binding] 339670007640 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 339670007641 DNA-binding interface [nucleotide binding]; DNA binding site 339670007642 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 339670007643 Right handed beta helix region; Region: Beta_helix; pfam13229 339670007644 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 339670007645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670007646 NAD(P) binding site [chemical binding]; other site 339670007647 active site 339670007648 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670007649 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670007650 ecotin; Provisional; Region: PRK03719 339670007651 secondary substrate binding site; other site 339670007652 primary substrate binding site; other site 339670007653 inhibition loop; other site 339670007654 dimerization interface [polypeptide binding]; other site 339670007655 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670007656 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670007657 putative substrate translocation pore; other site 339670007658 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670007659 Predicted ATPase [General function prediction only]; Region: COG3911 339670007660 AAA domain; Region: AAA_28; pfam13521 339670007661 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 339670007662 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 339670007663 active site 339670007664 homotetramer interface [polypeptide binding]; other site 339670007665 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 339670007666 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 339670007667 Walker A/P-loop; other site 339670007668 ATP binding site [chemical binding]; other site 339670007669 Q-loop/lid; other site 339670007670 ABC transporter signature motif; other site 339670007671 Walker B; other site 339670007672 D-loop; other site 339670007673 H-loop/switch region; other site 339670007674 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 339670007675 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 339670007676 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670007677 dimer interface [polypeptide binding]; other site 339670007678 conserved gate region; other site 339670007679 putative PBP binding loops; other site 339670007680 ABC-ATPase subunit interface; other site 339670007681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670007682 dimer interface [polypeptide binding]; other site 339670007683 conserved gate region; other site 339670007684 putative PBP binding loops; other site 339670007685 ABC-ATPase subunit interface; other site 339670007686 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670007687 HAMP domain; Region: HAMP; pfam00672 339670007688 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670007689 dimer interface [polypeptide binding]; other site 339670007690 phosphorylation site [posttranslational modification] 339670007691 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670007692 ATP binding site [chemical binding]; other site 339670007693 Mg2+ binding site [ion binding]; other site 339670007694 G-X-G motif; other site 339670007695 osmolarity response regulator; Provisional; Region: ompR; PRK09468 339670007696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670007697 active site 339670007698 phosphorylation site [posttranslational modification] 339670007699 intermolecular recognition site; other site 339670007700 dimerization interface [polypeptide binding]; other site 339670007701 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670007702 DNA binding site [nucleotide binding] 339670007703 Pirin-related protein [General function prediction only]; Region: COG1741 339670007704 Pirin; Region: Pirin; pfam02678 339670007705 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 339670007706 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670007707 substrate binding pocket [chemical binding]; other site 339670007708 membrane-bound complex binding site; other site 339670007709 hinge residues; other site 339670007710 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670007711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670007712 dimer interface [polypeptide binding]; other site 339670007713 conserved gate region; other site 339670007714 putative PBP binding loops; other site 339670007715 ABC-ATPase subunit interface; other site 339670007716 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670007717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670007718 dimer interface [polypeptide binding]; other site 339670007719 conserved gate region; other site 339670007720 putative PBP binding loops; other site 339670007721 ABC-ATPase subunit interface; other site 339670007722 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 339670007723 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670007724 Walker A/P-loop; other site 339670007725 ATP binding site [chemical binding]; other site 339670007726 Q-loop/lid; other site 339670007727 ABC transporter signature motif; other site 339670007728 Walker B; other site 339670007729 D-loop; other site 339670007730 H-loop/switch region; other site 339670007731 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670007732 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670007734 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 339670007735 putative substrate binding pocket [chemical binding]; other site 339670007736 dimerization interface [polypeptide binding]; other site 339670007737 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670007738 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670007739 trimer interface [polypeptide binding]; other site 339670007740 eyelet of channel; other site 339670007741 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 339670007742 Nitrogen regulatory protein P-II; Region: P-II; smart00938 339670007743 NAD synthetase; Provisional; Region: PRK13981 339670007744 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 339670007745 multimer interface [polypeptide binding]; other site 339670007746 active site 339670007747 catalytic triad [active] 339670007748 protein interface 1 [polypeptide binding]; other site 339670007749 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 339670007750 homodimer interface [polypeptide binding]; other site 339670007751 NAD binding pocket [chemical binding]; other site 339670007752 ATP binding pocket [chemical binding]; other site 339670007753 Mg binding site [ion binding]; other site 339670007754 active-site loop [active] 339670007755 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 339670007756 Protein of unknown function, DUF482; Region: DUF482; pfam04339 339670007757 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 339670007758 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 339670007759 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 339670007760 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 339670007761 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670007762 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670007763 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 339670007764 GIY-YIG motif/motif A; other site 339670007765 putative active site [active] 339670007766 putative metal binding site [ion binding]; other site 339670007767 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 339670007768 dimer interface [polypeptide binding]; other site 339670007769 substrate binding site [chemical binding]; other site 339670007770 metal binding sites [ion binding]; metal-binding site 339670007771 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670007772 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 339670007773 NAD(P) binding site [chemical binding]; other site 339670007774 catalytic residues [active] 339670007775 catalytic residues [active] 339670007776 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 339670007777 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 339670007778 putative NAD(P) binding site [chemical binding]; other site 339670007779 active site 339670007780 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 339670007781 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670007782 putative substrate translocation pore; other site 339670007783 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 339670007784 HemY protein N-terminus; Region: HemY_N; pfam07219 339670007785 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670007786 TPR motif; other site 339670007787 binding surface 339670007788 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 339670007789 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 339670007790 active site 339670007791 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 339670007792 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 339670007793 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 339670007794 domain interfaces; other site 339670007795 active site 339670007796 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 339670007797 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 339670007798 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670007799 S-adenosylmethionine binding site [chemical binding]; other site 339670007800 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 339670007801 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670007802 sequence-specific DNA binding site [nucleotide binding]; other site 339670007803 salt bridge; other site 339670007804 Spore Coat Protein U domain; Region: SCPU; pfam05229 339670007805 Uncharacterized secreted protein [Function unknown]; Region: COG5430 339670007806 Uncharacterized secreted protein [Function unknown]; Region: COG5430 339670007807 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 339670007808 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 339670007809 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 339670007810 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 339670007811 PapC C-terminal domain; Region: PapC_C; pfam13953 339670007812 argininosuccinate lyase; Provisional; Region: PRK00855 339670007813 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 339670007814 active sites [active] 339670007815 tetramer interface [polypeptide binding]; other site 339670007816 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 339670007817 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670007818 motif II; other site 339670007819 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 339670007820 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 339670007821 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 339670007822 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 339670007823 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670007824 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670007825 catalytic residue [active] 339670007826 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 339670007827 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 339670007828 trimer interface [polypeptide binding]; other site 339670007829 active site 339670007830 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 339670007831 E-class dimer interface [polypeptide binding]; other site 339670007832 P-class dimer interface [polypeptide binding]; other site 339670007833 active site 339670007834 Cu2+ binding site [ion binding]; other site 339670007835 Zn2+ binding site [ion binding]; other site 339670007836 Domain of unknown function DUF59; Region: DUF59; pfam01883 339670007837 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 339670007838 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 339670007839 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 339670007840 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670007841 ligand binding site [chemical binding]; other site 339670007842 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 339670007843 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 339670007844 active site 339670007845 HIGH motif; other site 339670007846 KMSKS motif; other site 339670007847 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 339670007848 tRNA binding surface [nucleotide binding]; other site 339670007849 anticodon binding site; other site 339670007850 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 339670007851 dimer interface [polypeptide binding]; other site 339670007852 putative tRNA-binding site [nucleotide binding]; other site 339670007853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 339670007854 Family of unknown function (DUF490); Region: DUF490; pfam04357 339670007855 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 339670007856 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 339670007857 Surface antigen; Region: Bac_surface_Ag; pfam01103 339670007858 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 339670007859 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 339670007860 pantoate--beta-alanine ligase; Region: panC; TIGR00018 339670007861 Pantoate-beta-alanine ligase; Region: PanC; cd00560 339670007862 active site 339670007863 ATP-binding site [chemical binding]; other site 339670007864 pantoate-binding site; other site 339670007865 HXXH motif; other site 339670007866 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 339670007867 tetramerization interface [polypeptide binding]; other site 339670007868 active site 339670007869 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 339670007870 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670007871 P-loop; other site 339670007872 Magnesium ion binding site [ion binding]; other site 339670007873 DoxX; Region: DoxX; pfam07681 339670007874 cobyric acid synthase; Provisional; Region: PRK00784 339670007875 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 339670007876 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 339670007877 catalytic triad [active] 339670007878 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 339670007879 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 339670007880 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 339670007881 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 339670007882 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670007883 catalytic residue [active] 339670007884 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 339670007885 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 339670007886 cobalamin binding residues [chemical binding]; other site 339670007887 putative BtuC binding residues; other site 339670007888 dimer interface [polypeptide binding]; other site 339670007889 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 339670007890 catalytic core [active] 339670007891 cobalamin synthase; Reviewed; Region: cobS; PRK00235 339670007892 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 339670007893 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 339670007894 putative dimer interface [polypeptide binding]; other site 339670007895 active site pocket [active] 339670007896 putative cataytic base [active] 339670007897 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 339670007898 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 339670007899 Walker A/P-loop; other site 339670007900 ATP binding site [chemical binding]; other site 339670007901 Q-loop/lid; other site 339670007902 ABC transporter signature motif; other site 339670007903 Walker B; other site 339670007904 D-loop; other site 339670007905 H-loop/switch region; other site 339670007906 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 339670007907 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 339670007908 ABC-ATPase subunit interface; other site 339670007909 dimer interface [polypeptide binding]; other site 339670007910 putative PBP binding regions; other site 339670007911 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 339670007912 Cell division protein ZapA; Region: ZapA; pfam05164 339670007913 Uncharacterized conserved protein [Function unknown]; Region: COG2947 339670007914 Protein of unknown function (DUF541); Region: SIMPL; cl01077 339670007915 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 339670007916 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 339670007917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007918 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 339670007919 putative dimerization interface [polypeptide binding]; other site 339670007920 putative substrate binding pocket [chemical binding]; other site 339670007921 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 339670007922 Cytochrome c; Region: Cytochrom_C; cl11414 339670007923 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 339670007924 DNA polymerase III subunit chi; Validated; Region: PRK05728 339670007925 multifunctional aminopeptidase A; Provisional; Region: PRK00913 339670007926 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 339670007927 interface (dimer of trimers) [polypeptide binding]; other site 339670007928 Substrate-binding/catalytic site; other site 339670007929 Zn-binding sites [ion binding]; other site 339670007930 Predicted permeases [General function prediction only]; Region: COG0795 339670007931 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 339670007932 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 339670007933 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 339670007934 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 339670007935 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 339670007936 putative active site [active] 339670007937 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 339670007938 active site 339670007939 SAM binding site [chemical binding]; other site 339670007940 homodimer interface [polypeptide binding]; other site 339670007941 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 339670007942 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 339670007943 CysD dimerization site [polypeptide binding]; other site 339670007944 G1 box; other site 339670007945 putative GEF interaction site [polypeptide binding]; other site 339670007946 GTP/Mg2+ binding site [chemical binding]; other site 339670007947 Switch I region; other site 339670007948 G2 box; other site 339670007949 G3 box; other site 339670007950 Switch II region; other site 339670007951 G4 box; other site 339670007952 G5 box; other site 339670007953 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 339670007954 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 339670007955 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 339670007956 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 339670007957 Active Sites [active] 339670007958 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 339670007959 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 339670007960 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 339670007961 Active Sites [active] 339670007962 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 339670007963 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 339670007964 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 339670007965 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 339670007966 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 339670007967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007968 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 339670007969 substrate binding site [chemical binding]; other site 339670007970 dimerization interface [polypeptide binding]; other site 339670007971 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670007972 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 339670007973 putative ligand binding site [chemical binding]; other site 339670007974 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670007975 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007976 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670007977 putative effector binding pocket; other site 339670007978 dimerization interface [polypeptide binding]; other site 339670007979 short chain dehydrogenase; Provisional; Region: PRK12937 339670007980 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 339670007981 NADP binding site [chemical binding]; other site 339670007982 homodimer interface [polypeptide binding]; other site 339670007983 active site 339670007984 substrate binding site [chemical binding]; other site 339670007985 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 339670007986 short chain dehydrogenase; Provisional; Region: PRK12937 339670007987 NADP binding site [chemical binding]; other site 339670007988 active site 339670007989 steroid binding site; other site 339670007990 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670007991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670007992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007993 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670007994 dimerization interface [polypeptide binding]; other site 339670007995 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670007996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670007997 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 339670007998 putative effector binding pocket; other site 339670007999 putative dimerization interface [polypeptide binding]; other site 339670008000 short chain dehydrogenase; Provisional; Region: PRK12744 339670008001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670008002 NAD(P) binding site [chemical binding]; other site 339670008003 active site 339670008004 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 339670008005 RNA binding surface [nucleotide binding]; other site 339670008006 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 339670008007 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 339670008008 active site 339670008009 uracil binding [chemical binding]; other site 339670008010 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670008011 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 339670008012 putative NAD(P) binding site [chemical binding]; other site 339670008013 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 339670008014 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670008015 catalytic loop [active] 339670008016 iron binding site [ion binding]; other site 339670008017 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 339670008018 FAD binding pocket [chemical binding]; other site 339670008019 FAD binding motif [chemical binding]; other site 339670008020 phosphate binding motif [ion binding]; other site 339670008021 beta-alpha-beta structure motif; other site 339670008022 NAD binding pocket [chemical binding]; other site 339670008023 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 339670008024 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670008025 inhibitor-cofactor binding pocket; inhibition site 339670008026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670008027 catalytic residue [active] 339670008028 putative acetyltransferase; Provisional; Region: PRK03624 339670008029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670008030 Coenzyme A binding pocket [chemical binding]; other site 339670008031 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 339670008032 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 339670008033 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 339670008034 Walker A/P-loop; other site 339670008035 ATP binding site [chemical binding]; other site 339670008036 Q-loop/lid; other site 339670008037 ABC transporter signature motif; other site 339670008038 Walker B; other site 339670008039 D-loop; other site 339670008040 H-loop/switch region; other site 339670008041 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 339670008042 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 339670008043 Walker A/P-loop; other site 339670008044 ATP binding site [chemical binding]; other site 339670008045 Q-loop/lid; other site 339670008046 ABC transporter signature motif; other site 339670008047 Walker B; other site 339670008048 D-loop; other site 339670008049 H-loop/switch region; other site 339670008050 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 339670008051 TM-ABC transporter signature motif; other site 339670008052 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670008053 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 339670008054 TM-ABC transporter signature motif; other site 339670008055 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 339670008056 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 339670008057 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 339670008058 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 339670008059 hypothetical protein; Reviewed; Region: PRK00024 339670008060 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 339670008061 MPN+ (JAMM) motif; other site 339670008062 Zinc-binding site [ion binding]; other site 339670008063 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 339670008064 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 339670008065 L-aspartate oxidase; Provisional; Region: PRK09077 339670008066 L-aspartate oxidase; Provisional; Region: PRK06175 339670008067 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 339670008068 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 339670008069 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 339670008070 dimerization interface [polypeptide binding]; other site 339670008071 active site 339670008072 quinolinate synthetase; Provisional; Region: PRK09375 339670008073 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 339670008074 Fatty acid desaturase; Region: FA_desaturase; pfam00487 339670008075 Di-iron ligands [ion binding]; other site 339670008076 Transposase; Region: DDE_Tnp_ISL3; pfam01610 339670008077 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 339670008078 Mechanosensitive ion channel; Region: MS_channel; pfam00924 339670008079 16S rRNA methyltransferase B; Provisional; Region: PRK14901 339670008080 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670008081 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 339670008082 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 339670008083 active site 339670008084 substrate binding site [chemical binding]; other site 339670008085 cosubstrate binding site; other site 339670008086 catalytic site [active] 339670008087 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 339670008088 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 339670008089 active site 339670008090 Riboflavin kinase; Region: Flavokinase; smart00904 339670008091 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 339670008092 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 339670008093 active site 339670008094 HIGH motif; other site 339670008095 nucleotide binding site [chemical binding]; other site 339670008096 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 339670008097 active site 339670008098 KMSKS motif; other site 339670008099 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 339670008100 tRNA binding surface [nucleotide binding]; other site 339670008101 anticodon binding site; other site 339670008102 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 339670008103 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 339670008104 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 339670008105 Flavoprotein; Region: Flavoprotein; pfam02441 339670008106 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 339670008107 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 339670008108 trimer interface [polypeptide binding]; other site 339670008109 active site 339670008110 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 339670008111 Transposase; Region: HTH_Tnp_1; cl17663 339670008112 Helix-turn-helix domain; Region: HTH_28; pfam13518 339670008113 putative transposase OrfB; Reviewed; Region: PHA02517 339670008114 HTH-like domain; Region: HTH_21; pfam13276 339670008115 Integrase core domain; Region: rve; pfam00665 339670008116 Integrase core domain; Region: rve_2; pfam13333 339670008117 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 339670008118 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 339670008119 Clp amino terminal domain; Region: Clp_N; pfam02861 339670008120 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670008121 Walker A motif; other site 339670008122 ATP binding site [chemical binding]; other site 339670008123 Walker B motif; other site 339670008124 arginine finger; other site 339670008125 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670008126 Walker A motif; other site 339670008127 ATP binding site [chemical binding]; other site 339670008128 Walker B motif; other site 339670008129 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 339670008130 Uncharacterized conserved protein [Function unknown]; Region: COG2127 339670008131 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 339670008132 DNA-binding site [nucleotide binding]; DNA binding site 339670008133 RNA-binding motif; other site 339670008134 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 339670008135 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 339670008136 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 339670008137 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 339670008138 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 339670008139 isocitrate dehydrogenase; Validated; Region: PRK07362 339670008140 isocitrate dehydrogenase; Reviewed; Region: PRK07006 339670008141 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 339670008142 pseudouridine synthase; Region: TIGR00093 339670008143 active site 339670008144 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 339670008145 elongation factor G; Reviewed; Region: PRK00007 339670008146 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 339670008147 G1 box; other site 339670008148 putative GEF interaction site [polypeptide binding]; other site 339670008149 GTP/Mg2+ binding site [chemical binding]; other site 339670008150 Switch I region; other site 339670008151 G2 box; other site 339670008152 G3 box; other site 339670008153 Switch II region; other site 339670008154 G4 box; other site 339670008155 G5 box; other site 339670008156 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 339670008157 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 339670008158 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 339670008159 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 339670008160 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670008161 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670008162 active site 339670008163 catalytic tetrad [active] 339670008164 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 339670008165 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670008166 DNA-binding site [nucleotide binding]; DNA binding site 339670008167 UTRA domain; Region: UTRA; pfam07702 339670008168 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670008169 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670008170 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670008171 MerR family regulatory protein; Region: MerR; pfam00376 339670008172 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 339670008173 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 339670008174 dimer interface [polypeptide binding]; other site 339670008175 active site 339670008176 oxalacetate/citrate binding site [chemical binding]; other site 339670008177 citrylCoA binding site [chemical binding]; other site 339670008178 coenzyme A binding site [chemical binding]; other site 339670008179 catalytic triad [active] 339670008180 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 339670008181 putative transporter; Provisional; Region: PRK10504 339670008182 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008183 putative substrate translocation pore; other site 339670008184 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670008185 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 339670008186 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 339670008187 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 339670008188 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 339670008189 Predicted membrane protein [Function unknown]; Region: COG4539 339670008190 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 339670008191 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 339670008192 ligand binding site [chemical binding]; other site 339670008193 flexible hinge region; other site 339670008194 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 339670008195 putative switch regulator; other site 339670008196 non-specific DNA interactions [nucleotide binding]; other site 339670008197 DNA binding site [nucleotide binding] 339670008198 sequence specific DNA binding site [nucleotide binding]; other site 339670008199 putative cAMP binding site [chemical binding]; other site 339670008200 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 339670008201 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 339670008202 Chromate transporter; Region: Chromate_transp; pfam02417 339670008203 superoxide dismutase; Provisional; Region: PRK10543 339670008204 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 339670008205 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 339670008206 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 339670008207 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 339670008208 generic binding surface II; other site 339670008209 generic binding surface I; other site 339670008210 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 339670008211 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 339670008212 Uncharacterized conserved protein [Function unknown]; Region: COG2835 339670008213 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 339670008214 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 339670008215 Ligand binding site; other site 339670008216 oligomer interface; other site 339670008217 adenylate kinase; Reviewed; Region: adk; PRK00279 339670008218 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 339670008219 AMP-binding site [chemical binding]; other site 339670008220 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 339670008221 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 339670008222 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 339670008223 NAD binding site [chemical binding]; other site 339670008224 homodimer interface [polypeptide binding]; other site 339670008225 homotetramer interface [polypeptide binding]; other site 339670008226 active site 339670008227 Uncharacterized conserved protein [Function unknown]; Region: COG2912 339670008228 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 339670008229 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 339670008230 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 339670008231 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 339670008232 ornithine carbamoyltransferase; Provisional; Region: PRK00779 339670008233 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 339670008234 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 339670008235 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 339670008236 FAD binding domain; Region: FAD_binding_4; pfam01565 339670008237 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 339670008238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 339670008239 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 339670008240 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 339670008241 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 339670008242 putative deacylase active site [active] 339670008243 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 339670008244 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670008245 acyl-activating enzyme (AAE) consensus motif; other site 339670008246 AMP binding site [chemical binding]; other site 339670008247 active site 339670008248 CoA binding site [chemical binding]; other site 339670008249 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 339670008250 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 339670008251 active site 339670008252 Int/Topo IB signature motif; other site 339670008253 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 339670008254 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 339670008255 DNA binding site [nucleotide binding] 339670008256 active site 339670008257 epoxyqueuosine reductase; Region: TIGR00276 339670008258 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 339670008259 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 339670008260 AMIN domain; Region: AMIN; pfam11741 339670008261 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 339670008262 active site 339670008263 metal binding site [ion binding]; metal-binding site 339670008264 EamA-like transporter family; Region: EamA; pfam00892 339670008265 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 339670008266 EamA-like transporter family; Region: EamA; pfam00892 339670008267 Pirin-related protein [General function prediction only]; Region: COG1741 339670008268 Pirin; Region: Pirin; pfam02678 339670008269 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 339670008270 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 339670008271 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 339670008272 catalytic residues [active] 339670008273 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 339670008274 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 339670008275 putative ATP binding site [chemical binding]; other site 339670008276 putative substrate interface [chemical binding]; other site 339670008277 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 339670008278 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 339670008279 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 339670008280 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 339670008281 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670008282 S-adenosylmethionine binding site [chemical binding]; other site 339670008283 Protein of unknown function DUF72; Region: DUF72; pfam01904 339670008284 methionine sulfoxide reductase A; Provisional; Region: PRK14054 339670008285 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 339670008286 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 339670008287 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670008288 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670008289 putative DNA binding site [nucleotide binding]; other site 339670008290 putative Zn2+ binding site [ion binding]; other site 339670008291 AsnC family; Region: AsnC_trans_reg; pfam01037 339670008292 arylformamidase; Region: trp_arylform; TIGR03035 339670008293 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 339670008294 kynureninase; Region: kynureninase; TIGR01814 339670008295 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670008296 catalytic residue [active] 339670008297 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 339670008298 benzoate transport; Region: 2A0115; TIGR00895 339670008299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008300 putative substrate translocation pore; other site 339670008301 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008302 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 339670008303 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 339670008304 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 339670008305 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 339670008306 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 339670008307 NAD(P) binding site [chemical binding]; other site 339670008308 catalytic residues [active] 339670008309 benzoylformate decarboxylase; Reviewed; Region: PRK07092 339670008310 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 339670008311 PYR/PP interface [polypeptide binding]; other site 339670008312 dimer interface [polypeptide binding]; other site 339670008313 TPP binding site [chemical binding]; other site 339670008314 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 339670008315 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 339670008316 TPP-binding site [chemical binding]; other site 339670008317 dimer interface [polypeptide binding]; other site 339670008318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670008319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670008320 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 339670008321 putative dimerization interface [polypeptide binding]; other site 339670008322 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 339670008323 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 339670008324 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 339670008325 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 339670008326 N- and C-terminal domain interface [polypeptide binding]; other site 339670008327 D-xylulose kinase; Region: XylB; TIGR01312 339670008328 active site 339670008329 MgATP binding site [chemical binding]; other site 339670008330 catalytic site [active] 339670008331 metal binding site [ion binding]; metal-binding site 339670008332 xylulose binding site [chemical binding]; other site 339670008333 homodimer interface [polypeptide binding]; other site 339670008334 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 339670008335 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 339670008336 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 339670008337 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008338 putative substrate translocation pore; other site 339670008339 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 339670008340 Beta-lactamase; Region: Beta-lactamase; pfam00144 339670008341 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670008342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670008343 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 339670008344 putative effector binding pocket; other site 339670008345 putative dimerization interface [polypeptide binding]; other site 339670008346 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 339670008347 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 339670008348 Walker A/P-loop; other site 339670008349 ATP binding site [chemical binding]; other site 339670008350 Q-loop/lid; other site 339670008351 ABC transporter signature motif; other site 339670008352 Walker B; other site 339670008353 D-loop; other site 339670008354 H-loop/switch region; other site 339670008355 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 339670008356 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 339670008357 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 339670008358 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670008359 dimer interface [polypeptide binding]; other site 339670008360 conserved gate region; other site 339670008361 putative PBP binding loops; other site 339670008362 ABC-ATPase subunit interface; other site 339670008363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670008364 dimer interface [polypeptide binding]; other site 339670008365 conserved gate region; other site 339670008366 putative PBP binding loops; other site 339670008367 ABC-ATPase subunit interface; other site 339670008368 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 339670008369 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 339670008370 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 339670008371 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 339670008372 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670008373 substrate binding site [chemical binding]; other site 339670008374 ATP binding site [chemical binding]; other site 339670008375 sorbitol dehydrogenase; Provisional; Region: PRK07067 339670008376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670008377 NAD(P) binding site [chemical binding]; other site 339670008378 active site 339670008379 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 339670008380 metal binding site 2 [ion binding]; metal-binding site 339670008381 putative DNA binding helix; other site 339670008382 metal binding site 1 [ion binding]; metal-binding site 339670008383 dimer interface [polypeptide binding]; other site 339670008384 structural Zn2+ binding site [ion binding]; other site 339670008385 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 339670008386 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 339670008387 metal binding site [ion binding]; metal-binding site 339670008388 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 339670008389 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 339670008390 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 339670008391 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 339670008392 ABC-ATPase subunit interface; other site 339670008393 dimer interface [polypeptide binding]; other site 339670008394 S-formylglutathione hydrolase; Region: PLN02442 339670008395 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 339670008396 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 339670008397 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 339670008398 nucleotide binding site [chemical binding]; other site 339670008399 xanthine permease; Region: pbuX; TIGR03173 339670008400 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 339670008401 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 339670008402 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 339670008403 Protein export membrane protein; Region: SecD_SecF; cl14618 339670008404 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 339670008405 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670008406 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670008407 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 339670008408 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670008409 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 339670008410 Isochorismatase family; Region: Isochorismatase; pfam00857 339670008411 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 339670008412 catalytic triad [active] 339670008413 conserved cis-peptide bond; other site 339670008414 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 339670008415 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 339670008416 conserved cys residue [active] 339670008417 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670008418 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670008419 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 339670008420 hydrophobic ligand binding site; other site 339670008421 Domain of unknown function (DUF427); Region: DUF427; pfam04248 339670008422 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 339670008423 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 339670008424 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 339670008425 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 339670008426 protein binding site [polypeptide binding]; other site 339670008427 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 339670008428 protein binding site [polypeptide binding]; other site 339670008429 sensor protein QseC; Provisional; Region: PRK10337 339670008430 HAMP domain; Region: HAMP; pfam00672 339670008431 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670008432 dimer interface [polypeptide binding]; other site 339670008433 phosphorylation site [posttranslational modification] 339670008434 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670008435 ATP binding site [chemical binding]; other site 339670008436 Mg2+ binding site [ion binding]; other site 339670008437 G-X-G motif; other site 339670008438 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 339670008439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670008440 active site 339670008441 phosphorylation site [posttranslational modification] 339670008442 intermolecular recognition site; other site 339670008443 dimerization interface [polypeptide binding]; other site 339670008444 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670008445 DNA binding site [nucleotide binding] 339670008446 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 339670008447 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 339670008448 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 339670008449 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 339670008450 active site 339670008451 catalytic triad [active] 339670008452 oxyanion hole [active] 339670008453 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 339670008454 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 339670008455 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 339670008456 ATP-grasp domain; Region: ATP-grasp; pfam02222 339670008457 AIR carboxylase; Region: AIRC; pfam00731 339670008458 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 339670008459 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 339670008460 ATP binding site [chemical binding]; other site 339670008461 active site 339670008462 substrate binding site [chemical binding]; other site 339670008463 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 339670008464 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 339670008465 intersubunit interface [polypeptide binding]; other site 339670008466 active site 339670008467 zinc binding site [ion binding]; other site 339670008468 Na+ binding site [ion binding]; other site 339670008469 pyruvate kinase; Provisional; Region: PRK05826 339670008470 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 339670008471 domain interfaces; other site 339670008472 active site 339670008473 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 339670008474 Phosphoglycerate kinase; Region: PGK; pfam00162 339670008475 substrate binding site [chemical binding]; other site 339670008476 hinge regions; other site 339670008477 ADP binding site [chemical binding]; other site 339670008478 catalytic site [active] 339670008479 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 339670008480 AzlC protein; Region: AzlC; pfam03591 339670008481 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 339670008482 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 339670008483 homodimer interface [polypeptide binding]; other site 339670008484 substrate-cofactor binding pocket; other site 339670008485 catalytic residue [active] 339670008486 Zinc-finger domain; Region: zf-CHCC; cl01821 339670008487 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 339670008488 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 339670008489 putative active site [active] 339670008490 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 339670008491 SnoaL-like domain; Region: SnoaL_3; pfam13474 339670008492 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 339670008493 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 339670008494 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 339670008495 Peptidase family M48; Region: Peptidase_M48; pfam01435 339670008496 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 339670008497 trimer interface [polypeptide binding]; other site 339670008498 dimer interface [polypeptide binding]; other site 339670008499 putative active site [active] 339670008500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 339670008501 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 339670008502 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 339670008503 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 339670008504 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 339670008505 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 339670008506 Ycf48-like protein; Provisional; Region: PRK13684 339670008507 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 339670008508 O-Antigen ligase; Region: Wzy_C; pfam04932 339670008509 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 339670008510 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 339670008511 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 339670008512 Pilin (bacterial filament); Region: Pilin; pfam00114 339670008513 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 339670008514 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 339670008515 CoA binding domain; Region: CoA_binding; smart00881 339670008516 CoA-ligase; Region: Ligase_CoA; pfam00549 339670008517 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 339670008518 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 339670008519 CoA-ligase; Region: Ligase_CoA; pfam00549 339670008520 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 339670008521 recombination regulator RecX; Provisional; Region: recX; PRK14136 339670008522 recombinase A; Provisional; Region: recA; PRK09354 339670008523 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 339670008524 hexamer interface [polypeptide binding]; other site 339670008525 Walker A motif; other site 339670008526 ATP binding site [chemical binding]; other site 339670008527 Walker B motif; other site 339670008528 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670008529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670008530 active site 339670008531 phosphorylation site [posttranslational modification] 339670008532 intermolecular recognition site; other site 339670008533 dimerization interface [polypeptide binding]; other site 339670008534 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670008535 DNA binding site [nucleotide binding] 339670008536 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 339670008537 HAMP domain; Region: HAMP; pfam00672 339670008538 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670008539 dimer interface [polypeptide binding]; other site 339670008540 phosphorylation site [posttranslational modification] 339670008541 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670008542 ATP binding site [chemical binding]; other site 339670008543 Mg2+ binding site [ion binding]; other site 339670008544 G-X-G motif; other site 339670008545 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008546 putative substrate translocation pore; other site 339670008547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670008548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670008549 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 339670008550 putative effector binding pocket; other site 339670008551 putative dimerization interface [polypeptide binding]; other site 339670008552 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670008553 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 339670008554 conserved cys residue [active] 339670008555 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670008556 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 339670008557 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 339670008558 conserved cys residue [active] 339670008559 Cupin domain; Region: Cupin_2; cl17218 339670008560 PAAR motif; Region: PAAR_motif; pfam05488 339670008561 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670008562 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670008563 trimer interface [polypeptide binding]; other site 339670008564 eyelet of channel; other site 339670008565 amidase; Provisional; Region: PRK07486 339670008566 Amidase; Region: Amidase; pfam01425 339670008567 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008568 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670008569 putative substrate translocation pore; other site 339670008570 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 339670008571 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670008572 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670008573 dimerization interface [polypeptide binding]; other site 339670008574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670008575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670008576 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670008577 putative effector binding pocket; other site 339670008578 dimerization interface [polypeptide binding]; other site 339670008579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 339670008580 Transposase; Region: HTH_Tnp_1; cl17663 339670008581 Helix-turn-helix domain; Region: HTH_28; pfam13518 339670008582 putative transposase OrfB; Reviewed; Region: PHA02517 339670008583 HTH-like domain; Region: HTH_21; pfam13276 339670008584 Integrase core domain; Region: rve; pfam00665 339670008585 Integrase core domain; Region: rve_2; pfam13333 339670008586 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 339670008587 Transglycosylase; Region: Transgly; pfam00912 339670008588 Uncharacterized conserved protein [Function unknown]; Region: COG3791 339670008589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 339670008590 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 339670008591 Transcriptional regulators [Transcription]; Region: FadR; COG2186 339670008592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670008593 DNA-binding site [nucleotide binding]; DNA binding site 339670008594 FCD domain; Region: FCD; pfam07729 339670008595 galactonate dehydratase; Provisional; Region: PRK14017 339670008596 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 339670008597 putative active site pocket [active] 339670008598 putative metal binding site [ion binding]; other site 339670008599 Copper resistance protein D; Region: CopD; pfam05425 339670008600 Cytochrome c; Region: Cytochrom_C; cl11414 339670008601 Cytochrome c; Region: Cytochrom_C; cl11414 339670008602 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670008603 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670008604 Cytochrome c; Region: Cytochrom_C; pfam00034 339670008605 helicase 45; Provisional; Region: PTZ00424 339670008606 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 339670008607 ATP binding site [chemical binding]; other site 339670008608 Mg++ binding site [ion binding]; other site 339670008609 motif III; other site 339670008610 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670008611 nucleotide binding region [chemical binding]; other site 339670008612 ATP-binding site [chemical binding]; other site 339670008613 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 339670008614 dinuclear metal binding motif [ion binding]; other site 339670008615 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 339670008616 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 339670008617 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 339670008618 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 339670008619 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 339670008620 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 339670008621 glycerol kinase; Provisional; Region: glpK; PRK00047 339670008622 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 339670008623 N- and C-terminal domain interface [polypeptide binding]; other site 339670008624 active site 339670008625 MgATP binding site [chemical binding]; other site 339670008626 catalytic site [active] 339670008627 metal binding site [ion binding]; metal-binding site 339670008628 glycerol binding site [chemical binding]; other site 339670008629 homotetramer interface [polypeptide binding]; other site 339670008630 homodimer interface [polypeptide binding]; other site 339670008631 FBP binding site [chemical binding]; other site 339670008632 protein IIAGlc interface [polypeptide binding]; other site 339670008633 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 339670008634 amphipathic channel; other site 339670008635 Asn-Pro-Ala signature motifs; other site 339670008636 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 339670008637 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670008638 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 339670008639 [2Fe-2S] cluster binding site [ion binding]; other site 339670008640 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 339670008641 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 339670008642 putative di-iron ligands [ion binding]; other site 339670008643 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670008644 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 339670008645 putative ligand binding site [chemical binding]; other site 339670008646 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 339670008647 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 339670008648 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 339670008649 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 339670008650 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 339670008651 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 339670008652 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670008653 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 339670008654 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 339670008655 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 339670008656 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670008657 non-specific DNA binding site [nucleotide binding]; other site 339670008658 salt bridge; other site 339670008659 sequence-specific DNA binding site [nucleotide binding]; other site 339670008660 Cupin domain; Region: Cupin_2; pfam07883 339670008661 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008662 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670008663 putative substrate translocation pore; other site 339670008664 transcriptional regulator; Provisional; Region: PRK10632 339670008665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670008666 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670008667 putative effector binding pocket; other site 339670008668 dimerization interface [polypeptide binding]; other site 339670008669 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 339670008670 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 339670008671 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670008672 FeS/SAM binding site; other site 339670008673 TRAM domain; Region: TRAM; pfam01938 339670008674 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 339670008675 PhoH-like protein; Region: PhoH; pfam02562 339670008676 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 339670008677 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 339670008678 putative active site pocket [active] 339670008679 dimerization interface [polypeptide binding]; other site 339670008680 putative catalytic residue [active] 339670008681 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 339670008682 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 339670008683 Transporter associated domain; Region: CorC_HlyC; smart01091 339670008684 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 339670008685 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 339670008686 putative active site [active] 339670008687 catalytic triad [active] 339670008688 putative dimer interface [polypeptide binding]; other site 339670008689 TPR repeat; Region: TPR_11; pfam13414 339670008690 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670008691 binding surface 339670008692 TPR motif; other site 339670008693 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670008694 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 339670008695 dimer interface [polypeptide binding]; other site 339670008696 motif 1; other site 339670008697 active site 339670008698 motif 2; other site 339670008699 motif 3; other site 339670008700 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 339670008701 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 339670008702 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 339670008703 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670008704 active site 339670008705 motif I; other site 339670008706 motif II; other site 339670008707 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 339670008708 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 339670008709 putative acyl-acceptor binding pocket; other site 339670008710 Protein of unknown function DUF45; Region: DUF45; pfam01863 339670008711 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670008712 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 339670008713 dimer interface [polypeptide binding]; other site 339670008714 active site 339670008715 metal binding site [ion binding]; metal-binding site 339670008716 glutathione binding site [chemical binding]; other site 339670008717 EamA-like transporter family; Region: EamA; pfam00892 339670008718 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 339670008719 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 339670008720 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 339670008721 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 339670008722 SurA N-terminal domain; Region: SurA_N; pfam09312 339670008723 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 339670008724 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 339670008725 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 339670008726 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 339670008727 Organic solvent tolerance protein; Region: OstA_C; pfam04453 339670008728 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 339670008729 Phosphotransferase enzyme family; Region: APH; pfam01636 339670008730 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 339670008731 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 339670008732 Substrate binding site; other site 339670008733 metal-binding site 339670008734 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 339670008735 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 339670008736 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 339670008737 Walker A/P-loop; other site 339670008738 ATP binding site [chemical binding]; other site 339670008739 Q-loop/lid; other site 339670008740 ABC transporter signature motif; other site 339670008741 Walker B; other site 339670008742 D-loop; other site 339670008743 H-loop/switch region; other site 339670008744 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 339670008745 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 339670008746 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 339670008747 enoyl-CoA hydratase; Provisional; Region: PRK06688 339670008748 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670008749 substrate binding site [chemical binding]; other site 339670008750 oxyanion hole (OAH) forming residues; other site 339670008751 trimer interface [polypeptide binding]; other site 339670008752 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 339670008753 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 339670008754 dimer interface [polypeptide binding]; other site 339670008755 active site 339670008756 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 339670008757 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 339670008758 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670008759 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 339670008760 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670008761 substrate binding site [chemical binding]; other site 339670008762 oxyanion hole (OAH) forming residues; other site 339670008763 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670008764 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670008765 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 339670008766 PLD-like domain; Region: PLDc_2; pfam13091 339670008767 putative active site [active] 339670008768 catalytic site [active] 339670008769 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 339670008770 PLD-like domain; Region: PLDc_2; pfam13091 339670008771 putative active site [active] 339670008772 catalytic site [active] 339670008773 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 339670008774 nudix motif; other site 339670008775 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 339670008776 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 339670008777 dimer interface [polypeptide binding]; other site 339670008778 anticodon binding site; other site 339670008779 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 339670008780 homodimer interface [polypeptide binding]; other site 339670008781 motif 1; other site 339670008782 active site 339670008783 motif 2; other site 339670008784 GAD domain; Region: GAD; pfam02938 339670008785 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 339670008786 motif 3; other site 339670008787 Uncharacterized conserved protein [Function unknown]; Region: COG2928 339670008788 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 339670008789 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 339670008790 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 339670008791 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 339670008792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 339670008793 SCP-2 sterol transfer family; Region: SCP2; pfam02036 339670008794 Tim44-like domain; Region: Tim44; pfam04280 339670008795 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 339670008796 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670008797 S-adenosylmethionine binding site [chemical binding]; other site 339670008798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 339670008799 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 339670008800 nucleotide binding site/active site [active] 339670008801 HIT family signature motif; other site 339670008802 catalytic residue [active] 339670008803 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 339670008804 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 339670008805 FAD binding domain; Region: FAD_binding_4; pfam01565 339670008806 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 339670008807 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 339670008808 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 339670008809 Cysteine-rich domain; Region: CCG; pfam02754 339670008810 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 339670008811 threonine dehydratase; Reviewed; Region: PRK09224 339670008812 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 339670008813 tetramer interface [polypeptide binding]; other site 339670008814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670008815 catalytic residue [active] 339670008816 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 339670008817 putative Ile/Val binding site [chemical binding]; other site 339670008818 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 339670008819 putative Ile/Val binding site [chemical binding]; other site 339670008820 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 339670008821 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 339670008822 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 339670008823 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 339670008824 homotrimer interaction site [polypeptide binding]; other site 339670008825 putative active site [active] 339670008826 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 339670008827 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 339670008828 active site 339670008829 putative substrate binding pocket [chemical binding]; other site 339670008830 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 339670008831 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 339670008832 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 339670008833 putative active site [active] 339670008834 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 339670008835 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 339670008836 dimer interface [polypeptide binding]; other site 339670008837 active site 339670008838 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 339670008839 substrate binding site [chemical binding]; other site 339670008840 catalytic residue [active] 339670008841 intracellular protease, PfpI family; Region: PfpI; TIGR01382 339670008842 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 339670008843 conserved cys residue [active] 339670008844 Transcriptional regulators [Transcription]; Region: MarR; COG1846 339670008845 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 339670008846 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008847 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670008848 putative substrate translocation pore; other site 339670008849 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008850 EcsC protein family; Region: EcsC; pfam12787 339670008851 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 339670008852 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 339670008853 CHRD domain; Region: CHRD; pfam07452 339670008854 aldolase II superfamily protein; Provisional; Region: PRK07044 339670008855 intersubunit interface [polypeptide binding]; other site 339670008856 active site 339670008857 Zn2+ binding site [ion binding]; other site 339670008858 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 339670008859 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 339670008860 putative active site [active] 339670008861 catalytic site [active] 339670008862 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 339670008863 putative active site [active] 339670008864 catalytic site [active] 339670008865 Transcriptional regulators [Transcription]; Region: FadR; COG2186 339670008866 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670008867 DNA-binding site [nucleotide binding]; DNA binding site 339670008868 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 339670008869 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 339670008870 Cysteine-rich domain; Region: CCG; pfam02754 339670008871 Cysteine-rich domain; Region: CCG; pfam02754 339670008872 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 339670008873 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 339670008874 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 339670008875 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 339670008876 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 339670008877 L-lactate permease; Region: Lactate_perm; cl00701 339670008878 glycolate transporter; Provisional; Region: PRK09695 339670008879 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 339670008880 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 339670008881 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 339670008882 Ligand binding site; other site 339670008883 Putative Catalytic site; other site 339670008884 DXD motif; other site 339670008885 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_5; cd06153 339670008886 homotrimer interaction site [polypeptide binding]; other site 339670008887 putative active site [active] 339670008888 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 339670008889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670008890 NAD(P) binding site [chemical binding]; other site 339670008891 active site 339670008892 acyl carrier protein; Provisional; Region: PRK09184 339670008893 Predicted membrane protein [Function unknown]; Region: COG4648 339670008894 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 339670008895 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670008896 acyl-activating enzyme (AAE) consensus motif; other site 339670008897 AMP binding site [chemical binding]; other site 339670008898 active site 339670008899 CoA binding site [chemical binding]; other site 339670008900 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 339670008901 active site 2 [active] 339670008902 dimer interface [polypeptide binding]; other site 339670008903 active site 1 [active] 339670008904 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 339670008905 putative acyl-acceptor binding pocket; other site 339670008906 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 339670008907 Predicted exporter [General function prediction only]; Region: COG4258 339670008908 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 339670008909 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 339670008910 NodB motif; other site 339670008911 active site 339670008912 catalytic site [active] 339670008913 metal binding site [ion binding]; metal-binding site 339670008914 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 339670008915 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 339670008916 dimer interface [polypeptide binding]; other site 339670008917 active site 339670008918 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 339670008919 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 339670008920 putative active site 1 [active] 339670008921 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 339670008922 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 339670008923 NAD(P) binding site [chemical binding]; other site 339670008924 homotetramer interface [polypeptide binding]; other site 339670008925 homodimer interface [polypeptide binding]; other site 339670008926 active site 339670008927 putative acyltransferase; Provisional; Region: PRK05790 339670008928 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 339670008929 dimer interface [polypeptide binding]; other site 339670008930 active site 339670008931 Phasin protein; Region: Phasin_2; pfam09361 339670008932 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 339670008933 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670008934 P-loop; other site 339670008935 Magnesium ion binding site [ion binding]; other site 339670008936 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670008937 Magnesium ion binding site [ion binding]; other site 339670008938 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 339670008939 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 339670008940 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 339670008941 Fimbrial protein; Region: Fimbrial; cl01416 339670008942 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 339670008943 PapC N-terminal domain; Region: PapC_N; pfam13954 339670008944 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 339670008945 PapC C-terminal domain; Region: PapC_C; pfam13953 339670008946 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 339670008947 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 339670008948 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 339670008949 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 339670008950 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670008951 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670008952 substrate binding pocket [chemical binding]; other site 339670008953 membrane-bound complex binding site; other site 339670008954 hinge residues; other site 339670008955 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670008956 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670008957 dimer interface [polypeptide binding]; other site 339670008958 phosphorylation site [posttranslational modification] 339670008959 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670008960 ATP binding site [chemical binding]; other site 339670008961 Mg2+ binding site [ion binding]; other site 339670008962 G-X-G motif; other site 339670008963 Response regulator receiver domain; Region: Response_reg; pfam00072 339670008964 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670008965 active site 339670008966 phosphorylation site [posttranslational modification] 339670008967 intermolecular recognition site; other site 339670008968 dimerization interface [polypeptide binding]; other site 339670008969 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670008970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670008971 active site 339670008972 phosphorylation site [posttranslational modification] 339670008973 intermolecular recognition site; other site 339670008974 dimerization interface [polypeptide binding]; other site 339670008975 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670008976 DNA binding residues [nucleotide binding] 339670008977 dimerization interface [polypeptide binding]; other site 339670008978 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 339670008979 Transposase; Region: HTH_Tnp_1; cl17663 339670008980 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 339670008981 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 339670008982 dimer interface [polypeptide binding]; other site 339670008983 ssDNA binding site [nucleotide binding]; other site 339670008984 tetramer (dimer of dimers) interface [polypeptide binding]; other site 339670008985 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670008986 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670008987 putative substrate translocation pore; other site 339670008988 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 339670008989 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 339670008990 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 339670008991 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 339670008992 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 339670008993 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 339670008994 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 339670008995 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 339670008996 putative active site [active] 339670008997 putative substrate binding site [chemical binding]; other site 339670008998 putative cosubstrate binding site; other site 339670008999 catalytic site [active] 339670009000 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 339670009001 nudix motif; other site 339670009002 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670009003 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670009004 active site 339670009005 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 339670009006 TrkA-N domain; Region: TrkA_N; pfam02254 339670009007 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 339670009008 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 339670009009 putative active site [active] 339670009010 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 339670009011 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 339670009012 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 339670009013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 339670009014 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 339670009015 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 339670009016 OstA-like protein; Region: OstA; pfam03968 339670009017 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 339670009018 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 339670009019 Walker A/P-loop; other site 339670009020 ATP binding site [chemical binding]; other site 339670009021 Q-loop/lid; other site 339670009022 ABC transporter signature motif; other site 339670009023 Walker B; other site 339670009024 D-loop; other site 339670009025 H-loop/switch region; other site 339670009026 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 339670009027 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 339670009028 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 339670009029 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 339670009030 30S subunit binding site; other site 339670009031 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 339670009032 active site 339670009033 phosphorylation site [posttranslational modification] 339670009034 HPr kinase/phosphorylase; Provisional; Region: PRK05428 339670009035 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 339670009036 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 339670009037 Hpr binding site; other site 339670009038 active site 339670009039 homohexamer subunit interaction site [polypeptide binding]; other site 339670009040 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 339670009041 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 339670009042 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 339670009043 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 339670009044 minor groove reading motif; other site 339670009045 helix-hairpin-helix signature motif; other site 339670009046 substrate binding pocket [chemical binding]; other site 339670009047 active site 339670009048 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 339670009049 DNA binding and oxoG recognition site [nucleotide binding] 339670009050 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 339670009051 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 339670009052 DNA binding site [nucleotide binding] 339670009053 catalytic residue [active] 339670009054 H2TH interface [polypeptide binding]; other site 339670009055 putative catalytic residues [active] 339670009056 turnover-facilitating residue; other site 339670009057 intercalation triad [nucleotide binding]; other site 339670009058 8OG recognition residue [nucleotide binding]; other site 339670009059 putative reading head residues; other site 339670009060 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 339670009061 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 339670009062 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 339670009063 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 339670009064 binding surface 339670009065 TPR motif; other site 339670009066 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 339670009067 binding surface 339670009068 TPR motif; other site 339670009069 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670009070 binding surface 339670009071 TPR motif; other site 339670009072 TPR repeat; Region: TPR_11; pfam13414 339670009073 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670009074 binding surface 339670009075 TPR motif; other site 339670009076 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 339670009077 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 339670009078 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 339670009079 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 339670009080 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 339670009081 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 339670009082 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 339670009083 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670009084 active site 339670009085 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 339670009086 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 339670009087 5S rRNA interface [nucleotide binding]; other site 339670009088 CTC domain interface [polypeptide binding]; other site 339670009089 L16 interface [polypeptide binding]; other site 339670009090 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 339670009091 putative active site [active] 339670009092 catalytic residue [active] 339670009093 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 339670009094 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670009095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670009096 homodimer interface [polypeptide binding]; other site 339670009097 catalytic residue [active] 339670009098 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 339670009099 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 339670009100 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 339670009101 active site 339670009102 (T/H)XGH motif; other site 339670009103 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 339670009104 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670009105 S-adenosylmethionine binding site [chemical binding]; other site 339670009106 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 339670009107 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 339670009108 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 339670009109 P loop; other site 339670009110 GTP binding site [chemical binding]; other site 339670009111 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 339670009112 maleylacetoacetate isomerase; Region: maiA; TIGR01262 339670009113 C-terminal domain interface [polypeptide binding]; other site 339670009114 GSH binding site (G-site) [chemical binding]; other site 339670009115 putative dimer interface [polypeptide binding]; other site 339670009116 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 339670009117 dimer interface [polypeptide binding]; other site 339670009118 N-terminal domain interface [polypeptide binding]; other site 339670009119 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 339670009120 glycosyl transferase family protein; Provisional; Region: PRK08136 339670009121 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 339670009122 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 339670009123 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 339670009124 active site 339670009125 catalytic residues [active] 339670009126 metal binding site [ion binding]; metal-binding site 339670009127 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 339670009128 SnoaL-like domain; Region: SnoaL_3; pfam13474 339670009129 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 339670009130 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 339670009131 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 339670009132 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670009133 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670009134 DNA binding residues [nucleotide binding] 339670009135 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 339670009136 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 339670009137 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 339670009138 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 339670009139 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 339670009140 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 339670009141 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 339670009142 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 339670009143 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 339670009144 active site 339670009145 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 339670009146 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 339670009147 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 339670009148 active site turn [active] 339670009149 phosphorylation site [posttranslational modification] 339670009150 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 339670009151 HPr interaction site; other site 339670009152 glycerol kinase (GK) interaction site [polypeptide binding]; other site 339670009153 active site 339670009154 phosphorylation site [posttranslational modification] 339670009155 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 339670009156 dimerization domain swap beta strand [polypeptide binding]; other site 339670009157 regulatory protein interface [polypeptide binding]; other site 339670009158 active site 339670009159 regulatory phosphorylation site [posttranslational modification]; other site 339670009160 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 339670009161 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 339670009162 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 339670009163 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 339670009164 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 339670009165 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 339670009166 dimer interface [polypeptide binding]; other site 339670009167 active site 339670009168 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 339670009169 dimer interface [polypeptide binding]; other site 339670009170 active site 339670009171 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 339670009172 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 339670009173 active site 339670009174 dimer interface [polypeptide binding]; other site 339670009175 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 339670009176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670009177 DNA-binding site [nucleotide binding]; DNA binding site 339670009178 UTRA domain; Region: UTRA; pfam07702 339670009179 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 339670009180 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 339670009181 putative active site [active] 339670009182 putative PHP Thumb interface [polypeptide binding]; other site 339670009183 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 339670009184 generic binding surface II; other site 339670009185 generic binding surface I; other site 339670009186 DNA Polymerase Y-family; Region: PolY_like; cd03468 339670009187 active site 339670009188 DNA binding site [nucleotide binding] 339670009189 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 339670009190 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 339670009191 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 339670009192 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 339670009193 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670009194 dimer interface [polypeptide binding]; other site 339670009195 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 339670009196 putative CheW interface [polypeptide binding]; other site 339670009197 YCII-related domain; Region: YCII; cl00999 339670009198 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 339670009199 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 339670009200 Cu(I) binding site [ion binding]; other site 339670009201 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 339670009202 UbiA prenyltransferase family; Region: UbiA; pfam01040 339670009203 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 339670009204 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 339670009205 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 339670009206 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 339670009207 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 339670009208 Subunit III/VIIa interface [polypeptide binding]; other site 339670009209 Phospholipid binding site [chemical binding]; other site 339670009210 Subunit I/III interface [polypeptide binding]; other site 339670009211 Subunit III/VIb interface [polypeptide binding]; other site 339670009212 Subunit III/VIa interface; other site 339670009213 Subunit III/Vb interface [polypeptide binding]; other site 339670009214 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 339670009215 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 339670009216 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 339670009217 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 339670009218 Subunit I/III interface [polypeptide binding]; other site 339670009219 D-pathway; other site 339670009220 Subunit I/VIIc interface [polypeptide binding]; other site 339670009221 Subunit I/IV interface [polypeptide binding]; other site 339670009222 Subunit I/II interface [polypeptide binding]; other site 339670009223 Low-spin heme (heme a) binding site [chemical binding]; other site 339670009224 Subunit I/VIIa interface [polypeptide binding]; other site 339670009225 Subunit I/VIa interface [polypeptide binding]; other site 339670009226 Dimer interface; other site 339670009227 Putative water exit pathway; other site 339670009228 Binuclear center (heme a3/CuB) [ion binding]; other site 339670009229 K-pathway; other site 339670009230 Subunit I/Vb interface [polypeptide binding]; other site 339670009231 Putative proton exit pathway; other site 339670009232 Subunit I/VIb interface; other site 339670009233 Subunit I/VIc interface [polypeptide binding]; other site 339670009234 Electron transfer pathway; other site 339670009235 Subunit I/VIIIb interface [polypeptide binding]; other site 339670009236 Subunit I/VIIb interface [polypeptide binding]; other site 339670009237 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 339670009238 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 339670009239 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 339670009240 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670009241 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 339670009242 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670009243 ligand binding site [chemical binding]; other site 339670009244 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 339670009245 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 339670009246 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670009247 S-adenosylmethionine binding site [chemical binding]; other site 339670009248 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 339670009249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670009250 active site 339670009251 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 339670009252 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 339670009253 putative ADP-ribose binding site [chemical binding]; other site 339670009254 putative active site [active] 339670009255 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 339670009256 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 339670009257 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 339670009258 preprotein translocase subunit SecB; Validated; Region: PRK05751 339670009259 SecA binding site; other site 339670009260 Preprotein binding site; other site 339670009261 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 339670009262 GSH binding site [chemical binding]; other site 339670009263 catalytic residues [active] 339670009264 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 339670009265 active site residue [active] 339670009266 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 339670009267 catalytic core [active] 339670009268 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 339670009269 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 339670009270 C-terminal peptidase (prc); Region: prc; TIGR00225 339670009271 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 339670009272 protein binding site [polypeptide binding]; other site 339670009273 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 339670009274 Catalytic dyad [active] 339670009275 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 339670009276 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 339670009277 ATP binding site [chemical binding]; other site 339670009278 substrate interface [chemical binding]; other site 339670009279 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 339670009280 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 339670009281 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 339670009282 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 339670009283 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 339670009284 dimerization domain swap beta strand [polypeptide binding]; other site 339670009285 regulatory protein interface [polypeptide binding]; other site 339670009286 active site 339670009287 regulatory phosphorylation site [posttranslational modification]; other site 339670009288 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 339670009289 active pocket/dimerization site; other site 339670009290 active site 339670009291 phosphorylation site [posttranslational modification] 339670009292 glutathione synthetase; Provisional; Region: PRK05246 339670009293 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 339670009294 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 339670009295 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 339670009296 Glutamate-cysteine ligase; Region: GshA; pfam08886 339670009297 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 339670009298 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 339670009299 Nitrogen regulatory protein P-II; Region: P-II; smart00938 339670009300 Membrane fusogenic activity; Region: BMFP; pfam04380 339670009301 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 339670009302 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 339670009303 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 339670009304 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 339670009305 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 339670009306 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670009307 catalytic residues [active] 339670009308 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 339670009309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670009310 active site 339670009311 phosphorylation site [posttranslational modification] 339670009312 intermolecular recognition site; other site 339670009313 dimerization interface [polypeptide binding]; other site 339670009314 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670009315 Walker A motif; other site 339670009316 ATP binding site [chemical binding]; other site 339670009317 Walker B motif; other site 339670009318 arginine finger; other site 339670009319 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670009320 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 339670009321 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670009322 dimer interface [polypeptide binding]; other site 339670009323 phosphorylation site [posttranslational modification] 339670009324 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670009325 ATP binding site [chemical binding]; other site 339670009326 G-X-G motif; other site 339670009327 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 339670009328 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670009329 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 339670009330 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 339670009331 Na binding site [ion binding]; other site 339670009332 Protein of unknown function, DUF485; Region: DUF485; pfam04341 339670009333 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670009334 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670009335 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 339670009336 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 339670009337 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 339670009338 active site 339670009339 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 339670009340 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 339670009341 FAD binding site [chemical binding]; other site 339670009342 substrate binding site [chemical binding]; other site 339670009343 catalytic base [active] 339670009344 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 339670009345 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670009346 substrate binding site [chemical binding]; other site 339670009347 oxyanion hole (OAH) forming residues; other site 339670009348 trimer interface [polypeptide binding]; other site 339670009349 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 339670009350 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670009351 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670009352 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670009353 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670009354 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670009355 putative effector binding pocket; other site 339670009356 dimerization interface [polypeptide binding]; other site 339670009357 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 339670009358 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 339670009359 lipoyl synthase; Provisional; Region: PRK05481 339670009360 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670009361 FeS/SAM binding site; other site 339670009362 lipoate-protein ligase B; Provisional; Region: PRK14343 339670009363 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 339670009364 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670009365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670009366 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670009367 dimerization interface [polypeptide binding]; other site 339670009368 substrate binding pocket [chemical binding]; other site 339670009369 hypothetical protein; Provisional; Region: PRK02047 339670009370 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 339670009371 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 339670009372 homodimer interface [polypeptide binding]; other site 339670009373 substrate-cofactor binding pocket; other site 339670009374 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670009375 catalytic residue [active] 339670009376 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 339670009377 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 339670009378 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 339670009379 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 339670009380 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 339670009381 dimer interface [polypeptide binding]; other site 339670009382 [2Fe-2S] cluster binding site [ion binding]; other site 339670009383 Protein of unknown function (DUF330); Region: DUF330; pfam03886 339670009384 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 339670009385 mce related protein; Region: MCE; pfam02470 339670009386 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 339670009387 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 339670009388 Walker A/P-loop; other site 339670009389 ATP binding site [chemical binding]; other site 339670009390 Q-loop/lid; other site 339670009391 ABC transporter signature motif; other site 339670009392 Walker B; other site 339670009393 D-loop; other site 339670009394 H-loop/switch region; other site 339670009395 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 339670009396 Permease; Region: Permease; pfam02405 339670009397 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 339670009398 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 339670009399 active site 339670009400 metal binding site [ion binding]; metal-binding site 339670009401 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 339670009402 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 339670009403 Sel1-like repeats; Region: SEL1; smart00671 339670009404 biotin--protein ligase; Provisional; Region: PRK06955 339670009405 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 339670009406 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 339670009407 pantothenate kinase; Reviewed; Region: PRK13328 339670009408 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 339670009409 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 339670009410 active site 339670009411 nucleotide binding site [chemical binding]; other site 339670009412 HIGH motif; other site 339670009413 KMSKS motif; other site 339670009414 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 339670009415 dinuclear metal binding motif [ion binding]; other site 339670009416 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 339670009417 active site 339670009418 nucleophile elbow; other site 339670009419 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 339670009420 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670009421 substrate binding site [chemical binding]; other site 339670009422 oxyanion hole (OAH) forming residues; other site 339670009423 trimer interface [polypeptide binding]; other site 339670009424 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 339670009425 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 339670009426 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 339670009427 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670009428 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670009429 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 339670009430 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 339670009431 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 339670009432 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 339670009433 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 339670009434 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 339670009435 substrate binding pocket [chemical binding]; other site 339670009436 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 339670009437 B12 binding site [chemical binding]; other site 339670009438 cobalt ligand [ion binding]; other site 339670009439 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 339670009440 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 339670009441 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 339670009442 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 339670009443 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 339670009444 active site 339670009445 HIGH motif; other site 339670009446 KMSK motif region; other site 339670009447 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 339670009448 tRNA binding surface [nucleotide binding]; other site 339670009449 anticodon binding site; other site 339670009450 Sporulation related domain; Region: SPOR; pfam05036 339670009451 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 339670009452 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 339670009453 catalytic residues [active] 339670009454 hinge region; other site 339670009455 alpha helical domain; other site 339670009456 short chain dehydrogenase; Provisional; Region: PRK07024 339670009457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670009458 NAD(P) binding site [chemical binding]; other site 339670009459 active site 339670009460 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 339670009461 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 339670009462 peptide binding site [polypeptide binding]; other site 339670009463 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 339670009464 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670009465 Walker A/P-loop; other site 339670009466 ATP binding site [chemical binding]; other site 339670009467 Q-loop/lid; other site 339670009468 ABC transporter signature motif; other site 339670009469 Walker B; other site 339670009470 D-loop; other site 339670009471 H-loop/switch region; other site 339670009472 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 339670009473 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 339670009474 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 339670009475 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 339670009476 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 339670009477 active site clefts [active] 339670009478 zinc binding site [ion binding]; other site 339670009479 dimer interface [polypeptide binding]; other site 339670009480 short chain dehydrogenase; Provisional; Region: PRK08219 339670009481 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 339670009482 NADP binding site [chemical binding]; other site 339670009483 homodimer interface [polypeptide binding]; other site 339670009484 active site 339670009485 hypothetical protein; Provisional; Region: PRK01842 339670009486 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 339670009487 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670009488 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 339670009489 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670009490 inhibitor-cofactor binding pocket; inhibition site 339670009491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670009492 catalytic residue [active] 339670009493 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 339670009494 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 339670009495 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670009496 catalytic residue [active] 339670009497 AAA domain; Region: AAA_26; pfam13500 339670009498 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 339670009499 biotin synthase; Region: bioB; TIGR00433 339670009500 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670009501 FeS/SAM binding site; other site 339670009502 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 339670009503 CutC family; Region: CutC; cl01218 339670009504 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670009505 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 339670009506 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 339670009507 beta-galactosidase; Region: BGL; TIGR03356 339670009508 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 339670009509 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 339670009510 dimer interface [polypeptide binding]; other site 339670009511 PYR/PP interface [polypeptide binding]; other site 339670009512 TPP binding site [chemical binding]; other site 339670009513 substrate binding site [chemical binding]; other site 339670009514 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 339670009515 TPP-binding site; other site 339670009516 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 339670009517 maltose O-acetyltransferase; Provisional; Region: PRK10092 339670009518 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 339670009519 active site 339670009520 substrate binding site [chemical binding]; other site 339670009521 trimer interface [polypeptide binding]; other site 339670009522 CoA binding site [chemical binding]; other site 339670009523 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670009524 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 339670009525 putative C-terminal domain interface [polypeptide binding]; other site 339670009526 putative GSH binding site (G-site) [chemical binding]; other site 339670009527 putative dimer interface [polypeptide binding]; other site 339670009528 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 339670009529 dimer interface [polypeptide binding]; other site 339670009530 N-terminal domain interface [polypeptide binding]; other site 339670009531 putative substrate binding pocket (H-site) [chemical binding]; other site 339670009532 Inward rectifier potassium channel; Region: IRK; pfam01007 339670009533 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 339670009534 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 339670009535 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 339670009536 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 339670009537 dimer interface [polypeptide binding]; other site 339670009538 active site 339670009539 catalytic residue [active] 339670009540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670009541 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670009542 dimerization interface [polypeptide binding]; other site 339670009543 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670009544 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670009545 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 339670009546 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670009547 N-terminal plug; other site 339670009548 ligand-binding site [chemical binding]; other site 339670009549 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 339670009550 C-terminal domain interface [polypeptide binding]; other site 339670009551 GSH binding site (G-site) [chemical binding]; other site 339670009552 dimer interface [polypeptide binding]; other site 339670009553 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 339670009554 dimer interface [polypeptide binding]; other site 339670009555 substrate binding pocket (H-site) [chemical binding]; other site 339670009556 N-terminal domain interface [polypeptide binding]; other site 339670009557 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670009558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670009559 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670009560 dimerization interface [polypeptide binding]; other site 339670009561 substrate binding pocket [chemical binding]; other site 339670009562 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 339670009563 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 339670009564 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670009565 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670009566 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 339670009567 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 339670009568 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670009569 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 339670009570 catalytic loop [active] 339670009571 iron binding site [ion binding]; other site 339670009572 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670009573 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 339670009574 Phosphoesterase family; Region: Phosphoesterase; pfam04185 339670009575 Domain of unknown function (DUF756); Region: DUF756; pfam05506 339670009576 Domain of unknown function (DUF756); Region: DUF756; pfam05506 339670009577 Serine hydrolase; Region: Ser_hydrolase; pfam06821 339670009578 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 339670009579 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 339670009580 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670009581 putative metal binding site [ion binding]; other site 339670009582 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 339670009583 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 339670009584 putative ligand binding site [chemical binding]; other site 339670009585 NAD binding site [chemical binding]; other site 339670009586 dimerization interface [polypeptide binding]; other site 339670009587 catalytic site [active] 339670009588 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 339670009589 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 339670009590 active site 339670009591 catalytic residues [active] 339670009592 metal binding site [ion binding]; metal-binding site 339670009593 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 339670009594 putative deacylase active site [active] 339670009595 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 339670009596 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 339670009597 EamA-like transporter family; Region: EamA; pfam00892 339670009598 EamA-like transporter family; Region: EamA; pfam00892 339670009599 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670009600 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670009601 dimerization interface [polypeptide binding]; other site 339670009602 putative DNA binding site [nucleotide binding]; other site 339670009603 putative Zn2+ binding site [ion binding]; other site 339670009604 AsnC family; Region: AsnC_trans_reg; pfam01037 339670009605 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670009606 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 339670009607 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 339670009608 FMN binding site [chemical binding]; other site 339670009609 substrate binding site [chemical binding]; other site 339670009610 putative catalytic residue [active] 339670009611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670009612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670009613 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670009614 putative effector binding pocket; other site 339670009615 dimerization interface [polypeptide binding]; other site 339670009616 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670009617 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670009618 eyelet of channel; other site 339670009619 trimer interface [polypeptide binding]; other site 339670009620 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 339670009621 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 339670009622 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670009623 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 339670009624 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670009625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670009626 metal binding site [ion binding]; metal-binding site 339670009627 active site 339670009628 I-site; other site 339670009629 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670009630 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670009631 DNA binding site [nucleotide binding] 339670009632 domain linker motif; other site 339670009633 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 339670009634 ligand binding site [chemical binding]; other site 339670009635 dimerization interface [polypeptide binding]; other site 339670009636 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 339670009637 dimerization interface [polypeptide binding]; other site 339670009638 putative active cleft [active] 339670009639 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 339670009640 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 339670009641 putative substrate binding site [chemical binding]; other site 339670009642 putative ATP binding site [chemical binding]; other site 339670009643 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 339670009644 Uncharacterized conserved protein [Function unknown]; Region: COG1565 339670009645 Dihydroneopterin aldolase; Region: FolB; pfam02152 339670009646 active site 339670009647 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 339670009648 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 339670009649 Ligand Binding Site [chemical binding]; other site 339670009650 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 339670009651 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 339670009652 Substrate binding site; other site 339670009653 Mg++ binding site; other site 339670009654 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 339670009655 active site 339670009656 substrate binding site [chemical binding]; other site 339670009657 CoA binding site [chemical binding]; other site 339670009658 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 339670009659 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 339670009660 glutaminase active site [active] 339670009661 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 339670009662 dimer interface [polypeptide binding]; other site 339670009663 active site 339670009664 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 339670009665 dimer interface [polypeptide binding]; other site 339670009666 active site 339670009667 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 339670009668 Predicted transcriptional regulator [Transcription]; Region: COG2944 339670009669 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670009670 non-specific DNA binding site [nucleotide binding]; other site 339670009671 salt bridge; other site 339670009672 sequence-specific DNA binding site [nucleotide binding]; other site 339670009673 Iron permease FTR1 family; Region: FTR1; cl00475 339670009674 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 339670009675 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 339670009676 metal-binding site [ion binding] 339670009677 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 339670009678 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 339670009679 NAD(P) binding site [chemical binding]; other site 339670009680 catalytic residues [active] 339670009681 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670009682 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 339670009683 non-specific DNA binding site [nucleotide binding]; other site 339670009684 salt bridge; other site 339670009685 sequence-specific DNA binding site [nucleotide binding]; other site 339670009686 Cupin domain; Region: Cupin_2; pfam07883 339670009687 Peptidase C26; Region: Peptidase_C26; pfam07722 339670009688 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 339670009689 catalytic triad [active] 339670009690 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 339670009691 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 339670009692 putative aminotransferase; Validated; Region: PRK07480 339670009693 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670009694 inhibitor-cofactor binding pocket; inhibition site 339670009695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670009696 catalytic residue [active] 339670009697 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 339670009698 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 339670009699 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670009700 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 339670009701 Walker A/P-loop; other site 339670009702 ATP binding site [chemical binding]; other site 339670009703 Q-loop/lid; other site 339670009704 ABC transporter signature motif; other site 339670009705 Walker B; other site 339670009706 D-loop; other site 339670009707 H-loop/switch region; other site 339670009708 TOBE domain; Region: TOBE_2; pfam08402 339670009709 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670009710 dimer interface [polypeptide binding]; other site 339670009711 conserved gate region; other site 339670009712 putative PBP binding loops; other site 339670009713 ABC-ATPase subunit interface; other site 339670009714 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670009715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670009716 dimer interface [polypeptide binding]; other site 339670009717 conserved gate region; other site 339670009718 putative PBP binding loops; other site 339670009719 ABC-ATPase subunit interface; other site 339670009720 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 339670009721 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 339670009722 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670009723 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670009724 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670009725 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670009726 glutathione reductase; Validated; Region: PRK06116 339670009727 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670009728 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670009729 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 339670009730 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670009731 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670009732 trimer interface [polypeptide binding]; other site 339670009733 eyelet of channel; other site 339670009734 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 339670009735 Chromate transporter; Region: Chromate_transp; pfam02417 339670009736 Chromate transporter; Region: Chromate_transp; pfam02417 339670009737 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670009738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670009739 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670009740 dimerization interface [polypeptide binding]; other site 339670009741 substrate binding pocket [chemical binding]; other site 339670009742 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 339670009743 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 339670009744 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 339670009745 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 339670009746 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 339670009747 Flagellar regulator YcgR; Region: YcgR; pfam07317 339670009748 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 339670009749 PilZ domain; Region: PilZ; pfam07238 339670009750 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 339670009751 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 339670009752 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 339670009753 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 339670009754 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 339670009755 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 339670009756 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 339670009757 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 339670009758 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 339670009759 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 339670009760 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 339670009761 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 339670009762 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 339670009763 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 339670009764 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 339670009765 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 339670009766 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 339670009767 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 339670009768 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 339670009769 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 339670009770 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 339670009771 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 339670009772 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 339670009773 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 339670009774 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 339670009775 SAF-like; Region: SAF_2; pfam13144 339670009776 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 339670009777 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 339670009778 FlgN protein; Region: FlgN; pfam05130 339670009779 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 339670009780 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 339670009781 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 339670009782 active site 339670009783 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670009784 sequence-specific DNA binding site [nucleotide binding]; other site 339670009785 salt bridge; other site 339670009786 Cupin domain; Region: Cupin_2; pfam07883 339670009787 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 339670009788 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 339670009789 active site 339670009790 NTP binding site [chemical binding]; other site 339670009791 metal binding triad [ion binding]; metal-binding site 339670009792 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 339670009793 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 339670009794 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670009795 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 339670009796 putative C-terminal domain interface [polypeptide binding]; other site 339670009797 putative GSH binding site (G-site) [chemical binding]; other site 339670009798 putative dimer interface [polypeptide binding]; other site 339670009799 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 339670009800 putative N-terminal domain interface [polypeptide binding]; other site 339670009801 putative dimer interface [polypeptide binding]; other site 339670009802 putative substrate binding pocket (H-site) [chemical binding]; other site 339670009803 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 339670009804 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 339670009805 putative NAD(P) binding site [chemical binding]; other site 339670009806 active site 339670009807 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 339670009808 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670009809 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670009810 catalytic residue [active] 339670009811 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 339670009812 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 339670009813 MarR family; Region: MarR_2; cl17246 339670009814 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670009815 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 339670009816 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 339670009817 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 339670009818 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 339670009819 putative active site [active] 339670009820 TraB family; Region: TraB; pfam01963 339670009821 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 339670009822 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670009823 Walker A/P-loop; other site 339670009824 ATP binding site [chemical binding]; other site 339670009825 Q-loop/lid; other site 339670009826 ABC transporter signature motif; other site 339670009827 Walker B; other site 339670009828 D-loop; other site 339670009829 H-loop/switch region; other site 339670009830 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 339670009831 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 339670009832 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670009833 Walker A/P-loop; other site 339670009834 ATP binding site [chemical binding]; other site 339670009835 Q-loop/lid; other site 339670009836 ABC transporter signature motif; other site 339670009837 Walker B; other site 339670009838 D-loop; other site 339670009839 H-loop/switch region; other site 339670009840 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 339670009841 dipeptide transporter; Provisional; Region: PRK10913 339670009842 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670009843 dimer interface [polypeptide binding]; other site 339670009844 conserved gate region; other site 339670009845 putative PBP binding loops; other site 339670009846 ABC-ATPase subunit interface; other site 339670009847 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 339670009848 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670009849 dimer interface [polypeptide binding]; other site 339670009850 conserved gate region; other site 339670009851 putative PBP binding loops; other site 339670009852 ABC-ATPase subunit interface; other site 339670009853 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 339670009854 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 339670009855 peptide binding site [polypeptide binding]; other site 339670009856 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670009857 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670009858 putative substrate translocation pore; other site 339670009859 High potential iron-sulfur protein; Region: HIPIP; pfam01355 339670009860 Predicted dehydrogenase [General function prediction only]; Region: COG0579 339670009861 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670009862 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670009863 ATP binding site [chemical binding]; other site 339670009864 Walker B motif; other site 339670009865 arginine finger; other site 339670009866 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 339670009867 putative catalytic site [active] 339670009868 putative phosphate binding site [ion binding]; other site 339670009869 putative metal binding site [ion binding]; other site 339670009870 LysE type translocator; Region: LysE; cl00565 339670009871 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 339670009872 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 339670009873 FAD binding pocket [chemical binding]; other site 339670009874 FAD binding motif [chemical binding]; other site 339670009875 phosphate binding motif [ion binding]; other site 339670009876 beta-alpha-beta structure motif; other site 339670009877 NAD binding pocket [chemical binding]; other site 339670009878 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 339670009879 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670009880 ATP binding site [chemical binding]; other site 339670009881 Mg2+ binding site [ion binding]; other site 339670009882 G-X-G motif; other site 339670009883 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670009884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670009885 active site 339670009886 phosphorylation site [posttranslational modification] 339670009887 intermolecular recognition site; other site 339670009888 dimerization interface [polypeptide binding]; other site 339670009889 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670009890 DNA binding residues [nucleotide binding] 339670009891 dimerization interface [polypeptide binding]; other site 339670009892 amino acid transporter; Region: 2A0306; TIGR00909 339670009893 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 339670009894 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 339670009895 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 339670009896 XdhC Rossmann domain; Region: XdhC_C; pfam13478 339670009897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 339670009898 Alpha trans-inducing protein (Alpha-TIF); Region: Alpha_TIF; cl03493 339670009899 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 339670009900 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 339670009901 Flagellar protein FliT; Region: FliT; cl05125 339670009902 flagellar protein FliS; Validated; Region: fliS; PRK05685 339670009903 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 339670009904 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 339670009905 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 339670009906 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 339670009907 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 339670009908 FliG C-terminal domain; Region: FliG_C; pfam01706 339670009909 flagellar assembly protein H; Validated; Region: fliH; PRK05687 339670009910 Flagellar assembly protein FliH; Region: FliH; pfam02108 339670009911 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 339670009912 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 339670009913 Walker A motif/ATP binding site; other site 339670009914 Walker B motif; other site 339670009915 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 339670009916 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 339670009917 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 339670009918 choline dehydrogenase; Validated; Region: PRK02106 339670009919 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670009920 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 339670009921 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 339670009922 NAD(P) binding site [chemical binding]; other site 339670009923 catalytic residues [active] 339670009924 serine/threonine protein kinase; Provisional; Region: PRK11768 339670009925 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 339670009926 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 339670009927 EamA-like transporter family; Region: EamA; pfam00892 339670009928 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670009929 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670009930 active site 339670009931 catalytic tetrad [active] 339670009932 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 339670009933 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 339670009934 S-adenosylmethionine synthetase; Validated; Region: PRK05250 339670009935 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 339670009936 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 339670009937 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 339670009938 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 339670009939 putative acyl-acceptor binding pocket; other site 339670009940 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 339670009941 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 339670009942 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 339670009943 Protein of unknown function, DUF484; Region: DUF484; cl17449 339670009944 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 339670009945 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 339670009946 active site 339670009947 DNA binding site [nucleotide binding] 339670009948 Int/Topo IB signature motif; other site 339670009949 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 339670009950 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 339670009951 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 339670009952 putative RNA binding site [nucleotide binding]; other site 339670009953 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670009954 S-adenosylmethionine binding site [chemical binding]; other site 339670009955 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 339670009956 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 339670009957 P-loop, Walker A motif; other site 339670009958 Base recognition motif; other site 339670009959 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 339670009960 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 339670009961 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 339670009962 active site 339670009963 HslU subunit interaction site [polypeptide binding]; other site 339670009964 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 339670009965 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670009966 Walker A motif; other site 339670009967 ATP binding site [chemical binding]; other site 339670009968 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 339670009969 Walker B motif; other site 339670009970 arginine finger; other site 339670009971 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 339670009972 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 339670009973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670009974 active site 339670009975 phosphorylation site [posttranslational modification] 339670009976 intermolecular recognition site; other site 339670009977 dimerization interface [polypeptide binding]; other site 339670009978 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670009979 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670009980 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670009981 dimer interface [polypeptide binding]; other site 339670009982 phosphorylation site [posttranslational modification] 339670009983 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670009984 ATP binding site [chemical binding]; other site 339670009985 Mg2+ binding site [ion binding]; other site 339670009986 G-X-G motif; other site 339670009987 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 339670009988 feedback inhibition sensing region; other site 339670009989 homohexameric interface [polypeptide binding]; other site 339670009990 nucleotide binding site [chemical binding]; other site 339670009991 N-acetyl-L-glutamate binding site [chemical binding]; other site 339670009992 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 339670009993 division inhibitor protein; Provisional; Region: slmA; PRK09480 339670009994 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670009995 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 339670009996 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 339670009997 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670009998 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670009999 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 339670010000 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 339670010001 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 339670010002 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 339670010003 Walker A/P-loop; other site 339670010004 ATP binding site [chemical binding]; other site 339670010005 Q-loop/lid; other site 339670010006 ABC transporter signature motif; other site 339670010007 Walker B; other site 339670010008 D-loop; other site 339670010009 H-loop/switch region; other site 339670010010 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 339670010011 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 339670010012 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 339670010013 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670010014 ligand binding site [chemical binding]; other site 339670010015 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 339670010016 trimer interface [polypeptide binding]; other site 339670010017 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 339670010018 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 339670010019 trimer interface [polypeptide binding]; other site 339670010020 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 339670010021 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 339670010022 trimer interface [polypeptide binding]; other site 339670010023 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 339670010024 trimer interface [polypeptide binding]; other site 339670010025 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 339670010026 trimer interface [polypeptide binding]; other site 339670010027 YadA-like C-terminal region; Region: YadA; pfam03895 339670010028 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 339670010029 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 339670010030 Methyltransferase domain; Region: Methyltransf_31; pfam13847 339670010031 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670010032 S-adenosylmethionine binding site [chemical binding]; other site 339670010033 muropeptide transporter; Reviewed; Region: ampG; PRK11902 339670010034 AmpG-like permease; Region: 2A0125; TIGR00901 339670010035 Peptidase family M48; Region: Peptidase_M48; cl12018 339670010036 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 339670010037 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670010038 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 339670010039 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 339670010040 putative NAD(P) binding site [chemical binding]; other site 339670010041 putative substrate binding site [chemical binding]; other site 339670010042 catalytic Zn binding site [ion binding]; other site 339670010043 structural Zn binding site [ion binding]; other site 339670010044 dimer interface [polypeptide binding]; other site 339670010045 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 339670010046 putative active site [active] 339670010047 putative catalytic site [active] 339670010048 putative DNA binding site [nucleotide binding]; other site 339670010049 putative phosphate binding site [ion binding]; other site 339670010050 metal binding site A [ion binding]; metal-binding site 339670010051 putative AP binding site [nucleotide binding]; other site 339670010052 putative metal binding site B [ion binding]; other site 339670010053 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 339670010054 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 339670010055 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 339670010056 GatB domain; Region: GatB_Yqey; smart00845 339670010057 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 339670010058 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 339670010059 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 339670010060 rod shape-determining protein MreB; Provisional; Region: PRK13927 339670010061 MreB and similar proteins; Region: MreB_like; cd10225 339670010062 nucleotide binding site [chemical binding]; other site 339670010063 Mg binding site [ion binding]; other site 339670010064 putative protofilament interaction site [polypeptide binding]; other site 339670010065 RodZ interaction site [polypeptide binding]; other site 339670010066 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 339670010067 rod shape-determining protein MreC; Region: MreC; pfam04085 339670010068 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 339670010069 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 339670010070 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 339670010071 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 339670010072 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 339670010073 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 339670010074 Sel1 repeat; Region: Sel1; cl02723 339670010075 Sel1-like repeats; Region: SEL1; smart00671 339670010076 Sel1-like repeats; Region: SEL1; smart00671 339670010077 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 339670010078 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 339670010079 active site 339670010080 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 339670010081 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 339670010082 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 339670010083 Ligand Binding Site [chemical binding]; other site 339670010084 Response regulator receiver domain; Region: Response_reg; pfam00072 339670010085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670010086 active site 339670010087 phosphorylation site [posttranslational modification] 339670010088 intermolecular recognition site; other site 339670010089 dimerization interface [polypeptide binding]; other site 339670010090 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 339670010091 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 339670010092 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670010093 dimerization interface [polypeptide binding]; other site 339670010094 PAS domain; Region: PAS; smart00091 339670010095 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670010096 dimer interface [polypeptide binding]; other site 339670010097 phosphorylation site [posttranslational modification] 339670010098 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670010099 ATP binding site [chemical binding]; other site 339670010100 Mg2+ binding site [ion binding]; other site 339670010101 G-X-G motif; other site 339670010102 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 339670010103 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 339670010104 16S rRNA methyltransferase B; Provisional; Region: PRK10901 339670010105 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670010106 S-adenosylmethionine binding site [chemical binding]; other site 339670010107 M48 family peptidase; Provisional; Region: PRK03001 339670010108 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670010109 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 339670010110 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 339670010111 putative active site [active] 339670010112 substrate binding site [chemical binding]; other site 339670010113 putative cosubstrate binding site; other site 339670010114 catalytic site [active] 339670010115 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 339670010116 substrate binding site [chemical binding]; other site 339670010117 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 339670010118 active site 339670010119 catalytic residues [active] 339670010120 metal binding site [ion binding]; metal-binding site 339670010121 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 339670010122 DNA protecting protein DprA; Region: dprA; TIGR00732 339670010123 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 339670010124 catalytic residues [active] 339670010125 DNA topoisomerase III; Validated; Region: PRK08173 339670010126 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 339670010127 active site 339670010128 putative interdomain interaction site [polypeptide binding]; other site 339670010129 putative metal-binding site [ion binding]; other site 339670010130 putative nucleotide binding site [chemical binding]; other site 339670010131 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 339670010132 domain I; other site 339670010133 DNA binding groove [nucleotide binding] 339670010134 phosphate binding site [ion binding]; other site 339670010135 domain II; other site 339670010136 domain III; other site 339670010137 nucleotide binding site [chemical binding]; other site 339670010138 catalytic site [active] 339670010139 domain IV; other site 339670010140 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 339670010141 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 339670010142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010144 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670010145 putative effector binding pocket; other site 339670010146 dimerization interface [polypeptide binding]; other site 339670010147 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 339670010148 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 339670010149 dimerization interface [polypeptide binding]; other site 339670010150 NAD binding site [chemical binding]; other site 339670010151 ligand binding site [chemical binding]; other site 339670010152 catalytic site [active] 339670010153 Patatin-like phospholipase; Region: Patatin; pfam01734 339670010154 active site 339670010155 nucleophile elbow; other site 339670010156 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 339670010157 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 339670010158 CoenzymeA binding site [chemical binding]; other site 339670010159 subunit interaction site [polypeptide binding]; other site 339670010160 PHB binding site; other site 339670010161 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 339670010162 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 339670010163 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 339670010164 CGNR zinc finger; Region: zf-CGNR; pfam11706 339670010165 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670010166 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 339670010167 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 339670010168 NAD(P) binding site [chemical binding]; other site 339670010169 catalytic residues [active] 339670010170 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 339670010171 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 339670010172 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670010173 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670010174 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670010175 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 339670010176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670010177 DNA-binding site [nucleotide binding]; DNA binding site 339670010178 FCD domain; Region: FCD; pfam07729 339670010179 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 339670010180 Phosphoesterase family; Region: Phosphoesterase; pfam04185 339670010181 Domain of unknown function (DUF756); Region: DUF756; pfam05506 339670010182 Domain of unknown function (DUF756); Region: DUF756; pfam05506 339670010183 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010184 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 339670010185 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670010186 dimerization interface [polypeptide binding]; other site 339670010187 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 339670010188 L-lactate permease; Region: Lactate_perm; cl00701 339670010189 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670010190 glutamate--cysteine ligase; Provisional; Region: PRK02107 339670010191 AlkA N-terminal domain; Region: AlkA_N; pfam06029 339670010192 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 339670010193 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 339670010194 minor groove reading motif; other site 339670010195 helix-hairpin-helix signature motif; other site 339670010196 substrate binding pocket [chemical binding]; other site 339670010197 active site 339670010198 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 339670010199 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 339670010200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670010201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670010202 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 339670010203 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 339670010204 DNA binding site [nucleotide binding] 339670010205 active site 339670010206 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 339670010207 dimer interface [polypeptide binding]; other site 339670010208 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670010209 metal binding site [ion binding]; metal-binding site 339670010210 YaeQ protein; Region: YaeQ; pfam07152 339670010211 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 339670010212 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670010213 Coenzyme A binding pocket [chemical binding]; other site 339670010214 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 339670010215 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670010216 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670010217 metal binding site [ion binding]; metal-binding site 339670010218 active site 339670010219 I-site; other site 339670010220 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 339670010221 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 339670010222 trmE is a tRNA modification GTPase; Region: trmE; cd04164 339670010223 G1 box; other site 339670010224 GTP/Mg2+ binding site [chemical binding]; other site 339670010225 Switch I region; other site 339670010226 G2 box; other site 339670010227 Switch II region; other site 339670010228 G3 box; other site 339670010229 G4 box; other site 339670010230 G5 box; other site 339670010231 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 339670010232 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670010233 non-specific DNA binding site [nucleotide binding]; other site 339670010234 salt bridge; other site 339670010235 sequence-specific DNA binding site [nucleotide binding]; other site 339670010236 membrane protein insertase; Provisional; Region: PRK01318 339670010237 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 339670010238 hypothetical protein; Validated; Region: PRK00041 339670010239 Ribonuclease P; Region: Ribonuclease_P; cl00457 339670010240 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 339670010241 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 339670010242 Domain of unknown function DUF21; Region: DUF21; pfam01595 339670010243 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 339670010244 Transporter associated domain; Region: CorC_HlyC; smart01091 339670010245 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670010246 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670010247 dimer interface [polypeptide binding]; other site 339670010248 phosphorylation site [posttranslational modification] 339670010249 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 339670010250 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010251 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010252 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670010253 dimerization interface [polypeptide binding]; other site 339670010254 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 339670010255 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 339670010256 dimer interface [polypeptide binding]; other site 339670010257 hexamer interface [polypeptide binding]; other site 339670010258 active site 2 [active] 339670010259 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 339670010260 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 339670010261 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 339670010262 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 339670010263 molybdenum-pterin binding domain; Region: Mop; TIGR00638 339670010264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670010265 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 339670010266 Walker A/P-loop; other site 339670010267 ATP binding site [chemical binding]; other site 339670010268 Q-loop/lid; other site 339670010269 ABC transporter signature motif; other site 339670010270 Walker B; other site 339670010271 D-loop; other site 339670010272 H-loop/switch region; other site 339670010273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670010274 putative PBP binding loops; other site 339670010275 dimer interface [polypeptide binding]; other site 339670010276 ABC-ATPase subunit interface; other site 339670010277 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 339670010278 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 339670010279 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 339670010280 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 339670010281 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 339670010282 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670010283 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670010284 putative DNA binding site [nucleotide binding]; other site 339670010285 putative Zn2+ binding site [ion binding]; other site 339670010286 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 339670010287 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 339670010288 putative active site [active] 339670010289 putative substrate binding site [chemical binding]; other site 339670010290 ATP binding site [chemical binding]; other site 339670010291 AMP nucleosidase; Provisional; Region: PRK08292 339670010292 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 339670010293 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 339670010294 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 339670010295 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670010296 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670010297 active site 339670010298 catalytic tetrad [active] 339670010299 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 339670010300 DNA polymerase I; Provisional; Region: PRK05755 339670010301 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 339670010302 active site 339670010303 metal binding site 1 [ion binding]; metal-binding site 339670010304 putative 5' ssDNA interaction site; other site 339670010305 metal binding site 3; metal-binding site 339670010306 metal binding site 2 [ion binding]; metal-binding site 339670010307 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 339670010308 putative DNA binding site [nucleotide binding]; other site 339670010309 putative metal binding site [ion binding]; other site 339670010310 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 339670010311 active site 339670010312 catalytic site [active] 339670010313 substrate binding site [chemical binding]; other site 339670010314 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 339670010315 active site 339670010316 DNA binding site [nucleotide binding] 339670010317 catalytic site [active] 339670010318 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 339670010319 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670010320 Dienelactone hydrolase family; Region: DLH; pfam01738 339670010321 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 339670010322 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 339670010323 active site residue [active] 339670010324 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 339670010325 active site residue [active] 339670010326 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670010327 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 339670010328 [2Fe-2S] cluster binding site [ion binding]; other site 339670010329 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 339670010330 alpha subunit interface [polypeptide binding]; other site 339670010331 active site 339670010332 substrate binding site [chemical binding]; other site 339670010333 Fe binding site [ion binding]; other site 339670010334 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 339670010335 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 339670010336 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 339670010337 substrate binding pocket [chemical binding]; other site 339670010338 chain length determination region; other site 339670010339 substrate-Mg2+ binding site; other site 339670010340 catalytic residues [active] 339670010341 aspartate-rich region 1; other site 339670010342 active site lid residues [active] 339670010343 aspartate-rich region 2; other site 339670010344 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 339670010345 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 339670010346 TPP-binding site; other site 339670010347 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 339670010348 PYR/PP interface [polypeptide binding]; other site 339670010349 dimer interface [polypeptide binding]; other site 339670010350 TPP binding site [chemical binding]; other site 339670010351 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 339670010352 putative GTP cyclohydrolase; Provisional; Region: PRK13674 339670010353 UGMP family protein; Validated; Region: PRK09604 339670010354 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 339670010355 Predicted flavoproteins [General function prediction only]; Region: COG2081 339670010356 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670010357 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 339670010358 Yqey-like protein; Region: YqeY; pfam09424 339670010359 DNA primase; Validated; Region: dnaG; PRK05667 339670010360 CHC2 zinc finger; Region: zf-CHC2; pfam01807 339670010361 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 339670010362 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 339670010363 active site 339670010364 metal binding site [ion binding]; metal-binding site 339670010365 interdomain interaction site; other site 339670010366 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 339670010367 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 339670010368 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 339670010369 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 339670010370 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 339670010371 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 339670010372 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670010373 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 339670010374 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670010375 DNA binding residues [nucleotide binding] 339670010376 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 339670010377 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 339670010378 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 339670010379 short chain dehydrogenase; Provisional; Region: PRK06172 339670010380 classical (c) SDRs; Region: SDR_c; cd05233 339670010381 NAD(P) binding site [chemical binding]; other site 339670010382 active site 339670010383 Creatinine amidohydrolase; Region: Creatininase; pfam02633 339670010384 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010385 D-galactonate transporter; Region: 2A0114; TIGR00893 339670010386 putative substrate translocation pore; other site 339670010387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010389 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670010390 dimerization interface [polypeptide binding]; other site 339670010391 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 339670010392 Uncharacterized conserved protein [Function unknown]; Region: COG1262 339670010393 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670010394 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670010395 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 339670010396 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 339670010397 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 339670010398 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 339670010399 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010400 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670010401 putative substrate translocation pore; other site 339670010402 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 339670010403 Sulfatase; Region: Sulfatase; cl17466 339670010404 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670010405 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670010406 trimer interface [polypeptide binding]; other site 339670010407 eyelet of channel; other site 339670010408 BON domain; Region: BON; pfam04972 339670010409 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 339670010410 Sulfatase; Region: Sulfatase; pfam00884 339670010411 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 339670010412 peptidase domain interface [polypeptide binding]; other site 339670010413 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 339670010414 active site 339670010415 catalytic triad [active] 339670010416 calcium binding site [ion binding]; other site 339670010417 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 339670010418 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670010419 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010420 putative substrate translocation pore; other site 339670010421 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010422 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 339670010423 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670010424 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670010425 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 339670010426 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670010427 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 339670010428 Mechanosensitive ion channel; Region: MS_channel; pfam00924 339670010429 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 339670010430 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 339670010431 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 339670010432 NAD-dependent deacetylase; Provisional; Region: PRK05333 339670010433 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 339670010434 NAD+ binding site [chemical binding]; other site 339670010435 substrate binding site [chemical binding]; other site 339670010436 Zn binding site [ion binding]; other site 339670010437 Methyltransferase domain; Region: Methyltransf_23; pfam13489 339670010438 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670010439 S-adenosylmethionine binding site [chemical binding]; other site 339670010440 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 339670010441 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 339670010442 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 339670010443 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670010444 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 339670010445 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 339670010446 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 339670010447 E3 interaction surface; other site 339670010448 lipoyl attachment site [posttranslational modification]; other site 339670010449 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 339670010450 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 339670010451 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 339670010452 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670010453 N-terminal plug; other site 339670010454 ligand-binding site [chemical binding]; other site 339670010455 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 339670010456 Lipase (class 2); Region: Lipase_2; pfam01674 339670010457 PGAP1-like protein; Region: PGAP1; pfam07819 339670010458 lipase chaperone; Provisional; Region: PRK01294 339670010459 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 339670010460 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670010461 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670010462 DNA-binding site [nucleotide binding]; DNA binding site 339670010463 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670010464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670010465 homodimer interface [polypeptide binding]; other site 339670010466 catalytic residue [active] 339670010467 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 339670010468 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 339670010469 Walker A/P-loop; other site 339670010470 ATP binding site [chemical binding]; other site 339670010471 Q-loop/lid; other site 339670010472 ABC transporter signature motif; other site 339670010473 Walker B; other site 339670010474 D-loop; other site 339670010475 H-loop/switch region; other site 339670010476 TOBE domain; Region: TOBE_2; pfam08402 339670010477 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 339670010478 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 339670010479 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670010480 dimer interface [polypeptide binding]; other site 339670010481 conserved gate region; other site 339670010482 putative PBP binding loops; other site 339670010483 ABC-ATPase subunit interface; other site 339670010484 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670010485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670010486 dimer interface [polypeptide binding]; other site 339670010487 conserved gate region; other site 339670010488 putative PBP binding loops; other site 339670010489 ABC-ATPase subunit interface; other site 339670010490 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670010491 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010492 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010493 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 339670010494 peptidase domain interface [polypeptide binding]; other site 339670010495 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 339670010496 active site 339670010497 catalytic triad [active] 339670010498 calcium binding site [ion binding]; other site 339670010499 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670010500 dimerization interface [polypeptide binding]; other site 339670010501 putative DNA binding site [nucleotide binding]; other site 339670010502 putative Zn2+ binding site [ion binding]; other site 339670010503 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 339670010504 putative hydrophobic ligand binding site [chemical binding]; other site 339670010505 Domain of unknown function (DU1801); Region: DUF1801; cl17490 339670010506 aconitate hydratase; Provisional; Region: acnA; PRK12881 339670010507 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 339670010508 substrate binding site [chemical binding]; other site 339670010509 ligand binding site [chemical binding]; other site 339670010510 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 339670010511 substrate binding site [chemical binding]; other site 339670010512 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 339670010513 2-methylcitrate dehydratase; Region: prpD; TIGR02330 339670010514 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 339670010515 malate dehydrogenase; Provisional; Region: PRK05442 339670010516 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 339670010517 NAD(P) binding site [chemical binding]; other site 339670010518 dimer interface [polypeptide binding]; other site 339670010519 malate binding site [chemical binding]; other site 339670010520 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 339670010521 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670010522 DNA-binding site [nucleotide binding]; DNA binding site 339670010523 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 339670010524 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 339670010525 Iron-sulfur protein interface; other site 339670010526 proximal quinone binding site [chemical binding]; other site 339670010527 SdhD (CybS) interface [polypeptide binding]; other site 339670010528 proximal heme binding site [chemical binding]; other site 339670010529 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 339670010530 SdhC subunit interface [polypeptide binding]; other site 339670010531 proximal heme binding site [chemical binding]; other site 339670010532 cardiolipin binding site; other site 339670010533 Iron-sulfur protein interface; other site 339670010534 proximal quinone binding site [chemical binding]; other site 339670010535 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 339670010536 L-aspartate oxidase; Provisional; Region: PRK06175 339670010537 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 339670010538 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 339670010539 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 339670010540 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 339670010541 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 339670010542 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 339670010543 dimer interface [polypeptide binding]; other site 339670010544 active site 339670010545 citrylCoA binding site [chemical binding]; other site 339670010546 NADH binding [chemical binding]; other site 339670010547 cationic pore residues; other site 339670010548 oxalacetate/citrate binding site [chemical binding]; other site 339670010549 coenzyme A binding site [chemical binding]; other site 339670010550 catalytic triad [active] 339670010551 Cupin domain; Region: Cupin_2; cl17218 339670010552 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670010553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670010554 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 339670010555 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670010556 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 339670010557 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 339670010558 Amidinotransferase; Region: Amidinotransf; cl12043 339670010559 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670010560 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 339670010561 AsnC family; Region: AsnC_trans_reg; pfam01037 339670010562 lysine transporter; Provisional; Region: PRK10836 339670010563 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 339670010564 glutathione s-transferase; Provisional; Region: PTZ00057 339670010565 GSH binding site (G-site) [chemical binding]; other site 339670010566 C-terminal domain interface [polypeptide binding]; other site 339670010567 dimer interface [polypeptide binding]; other site 339670010568 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 339670010569 dimer interface [polypeptide binding]; other site 339670010570 N-terminal domain interface [polypeptide binding]; other site 339670010571 substrate binding pocket (H-site) [chemical binding]; other site 339670010572 Cupin domain; Region: Cupin_2; cl17218 339670010573 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 339670010574 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_8; cd06317 339670010575 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 339670010576 putative ligand binding site [chemical binding]; other site 339670010577 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 339670010578 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 339670010579 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 339670010580 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 339670010581 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670010582 Walker A/P-loop; other site 339670010583 ATP binding site [chemical binding]; other site 339670010584 Q-loop/lid; other site 339670010585 ABC transporter signature motif; other site 339670010586 Walker B; other site 339670010587 D-loop; other site 339670010588 H-loop/switch region; other site 339670010589 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670010590 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670010591 TM-ABC transporter signature motif; other site 339670010592 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670010593 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670010594 TM-ABC transporter signature motif; other site 339670010595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010597 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670010598 putative effector binding pocket; other site 339670010599 dimerization interface [polypeptide binding]; other site 339670010600 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 339670010601 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 339670010602 dimer interface [polypeptide binding]; other site 339670010603 active site 339670010604 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 339670010605 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 339670010606 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 339670010607 active site 339670010608 dimer interface [polypeptide binding]; other site 339670010609 metal binding site [ion binding]; metal-binding site 339670010610 YciI-like protein; Reviewed; Region: PRK12863 339670010611 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 339670010612 classical (c) SDRs; Region: SDR_c; cd05233 339670010613 NAD(P) binding site [chemical binding]; other site 339670010614 active site 339670010615 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 339670010616 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 339670010617 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 339670010618 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010619 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010620 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 339670010621 putative effector binding pocket; other site 339670010622 putative dimerization interface [polypeptide binding]; other site 339670010623 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 339670010624 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 339670010625 substrate binding site [chemical binding]; other site 339670010626 ligand binding site [chemical binding]; other site 339670010627 Entericidin EcnA/B family; Region: Entericidin; cl02322 339670010628 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 339670010629 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 339670010630 substrate binding site [chemical binding]; other site 339670010631 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 339670010632 tartrate dehydrogenase; Region: TTC; TIGR02089 339670010633 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 339670010634 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 339670010635 FimV N-terminal domain; Region: FimV_core; TIGR03505 339670010636 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 339670010637 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 339670010638 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 339670010639 dimerization interface 3.5A [polypeptide binding]; other site 339670010640 active site 339670010641 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 339670010642 active site 339670010643 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 339670010644 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 339670010645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670010646 catalytic residue [active] 339670010647 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 339670010648 DNA methylase; Region: N6_N4_Mtase; pfam01555 339670010649 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 339670010650 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 339670010651 substrate binding site [chemical binding]; other site 339670010652 active site 339670010653 catalytic residues [active] 339670010654 heterodimer interface [polypeptide binding]; other site 339670010655 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 339670010656 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 339670010657 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 339670010658 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 339670010659 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 339670010660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 339670010661 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 339670010662 Colicin V production protein; Region: Colicin_V; pfam02674 339670010663 amidophosphoribosyltransferase; Provisional; Region: PRK09246 339670010664 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 339670010665 active site 339670010666 tetramer interface [polypeptide binding]; other site 339670010667 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 339670010668 active site 339670010669 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 339670010670 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 339670010671 homodimer interface [polypeptide binding]; other site 339670010672 substrate-cofactor binding pocket; other site 339670010673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670010674 catalytic residue [active] 339670010675 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670010676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670010677 NAD(P) binding site [chemical binding]; other site 339670010678 active site 339670010679 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 339670010680 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 339670010681 NADP-binding site; other site 339670010682 homotetramer interface [polypeptide binding]; other site 339670010683 substrate binding site [chemical binding]; other site 339670010684 homodimer interface [polypeptide binding]; other site 339670010685 active site 339670010686 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 339670010687 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 339670010688 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 339670010689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 339670010690 Probable transposase; Region: OrfB_IS605; pfam01385 339670010691 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670010692 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670010693 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 339670010694 putative ADP-binding pocket [chemical binding]; other site 339670010695 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 339670010696 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670010697 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 339670010698 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 339670010699 active site 339670010700 tetramer interface; other site 339670010701 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 339670010702 aminoglycoside resistance protein; Provisional; Region: PRK13746 339670010703 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 339670010704 dimer interface [polypeptide binding]; other site 339670010705 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670010706 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670010707 trimer interface [polypeptide binding]; other site 339670010708 eyelet of channel; other site 339670010709 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 339670010710 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 339670010711 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 339670010712 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 339670010713 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 339670010714 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 339670010715 molybdopterin cofactor binding site; other site 339670010716 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 339670010717 4Fe-4S binding domain; Region: Fer4; cl02805 339670010718 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 339670010719 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 339670010720 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 339670010721 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 339670010722 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 339670010723 selenocysteine synthase; Provisional; Region: PRK04311 339670010724 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 339670010725 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 339670010726 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670010727 catalytic residue [active] 339670010728 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 339670010729 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 339670010730 G1 box; other site 339670010731 putative GEF interaction site [polypeptide binding]; other site 339670010732 GTP/Mg2+ binding site [chemical binding]; other site 339670010733 Switch I region; other site 339670010734 G2 box; other site 339670010735 G3 box; other site 339670010736 Switch II region; other site 339670010737 G4 box; other site 339670010738 G5 box; other site 339670010739 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 339670010740 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 339670010741 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 339670010742 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 339670010743 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 339670010744 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 339670010745 NAD binding site [chemical binding]; other site 339670010746 substrate binding site [chemical binding]; other site 339670010747 homodimer interface [polypeptide binding]; other site 339670010748 active site 339670010749 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 339670010750 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 339670010751 NADP binding site [chemical binding]; other site 339670010752 active site 339670010753 putative substrate binding site [chemical binding]; other site 339670010754 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 339670010755 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 339670010756 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 339670010757 substrate binding site; other site 339670010758 tetramer interface; other site 339670010759 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010760 putative substrate translocation pore; other site 339670010761 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 339670010762 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 339670010763 Walker A/P-loop; other site 339670010764 ATP binding site [chemical binding]; other site 339670010765 Q-loop/lid; other site 339670010766 ABC transporter signature motif; other site 339670010767 Walker B; other site 339670010768 D-loop; other site 339670010769 H-loop/switch region; other site 339670010770 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 339670010771 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 339670010772 Walker A/P-loop; other site 339670010773 ATP binding site [chemical binding]; other site 339670010774 Q-loop/lid; other site 339670010775 ABC transporter signature motif; other site 339670010776 Walker B; other site 339670010777 D-loop; other site 339670010778 H-loop/switch region; other site 339670010779 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 339670010780 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 339670010781 TM-ABC transporter signature motif; other site 339670010782 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 339670010783 TM-ABC transporter signature motif; other site 339670010784 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670010785 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 339670010786 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 339670010787 homotrimer interaction site [polypeptide binding]; other site 339670010788 putative active site [active] 339670010789 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 339670010790 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670010791 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 339670010792 Transcriptional regulators [Transcription]; Region: GntR; COG1802 339670010793 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670010794 DNA-binding site [nucleotide binding]; DNA binding site 339670010795 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 339670010796 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 339670010797 Ligand binding site; other site 339670010798 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 339670010799 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 339670010800 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 339670010801 inhibitor site; inhibition site 339670010802 active site 339670010803 dimer interface [polypeptide binding]; other site 339670010804 catalytic residue [active] 339670010805 L-rhamnonate dehydratase; Provisional; Region: PRK15440 339670010806 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 339670010807 putative active site pocket [active] 339670010808 putative metal binding site [ion binding]; other site 339670010809 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 339670010810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670010811 NAD(P) binding site [chemical binding]; other site 339670010812 active site 339670010813 Domain of unknown function (DUF718); Region: DUF718; pfam05336 339670010814 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 339670010815 Amidohydrolase; Region: Amidohydro_2; pfam04909 339670010816 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 339670010817 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 339670010818 nudix motif; other site 339670010819 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 339670010820 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010822 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 339670010823 putative substrate binding pocket [chemical binding]; other site 339670010824 putative dimerization interface [polypeptide binding]; other site 339670010825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670010826 C factor cell-cell signaling protein; Provisional; Region: PRK09009 339670010827 NAD(P) binding site [chemical binding]; other site 339670010828 active site 339670010829 Uncharacterized conserved protein [Function unknown]; Region: COG1359 339670010830 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 339670010831 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 339670010832 putative active site [active] 339670010833 metal binding site [ion binding]; metal-binding site 339670010834 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 339670010835 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 339670010836 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670010837 substrate binding pocket [chemical binding]; other site 339670010838 membrane-bound complex binding site; other site 339670010839 hinge residues; other site 339670010840 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 339670010841 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 339670010842 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 339670010843 peptide binding site [polypeptide binding]; other site 339670010844 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 339670010845 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 339670010846 active site 339670010847 iron coordination sites [ion binding]; other site 339670010848 substrate binding pocket [chemical binding]; other site 339670010849 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 339670010850 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 339670010851 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 339670010852 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 339670010853 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 339670010854 Type IV pili component [Cell motility and secretion]; Region: COG5461 339670010855 AAA domain; Region: AAA_31; pfam13614 339670010856 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 339670010857 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 339670010858 ATP binding site [chemical binding]; other site 339670010859 Walker A motif; other site 339670010860 hexamer interface [polypeptide binding]; other site 339670010861 Walker B motif; other site 339670010862 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 339670010863 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670010864 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 339670010865 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670010866 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670010867 binding surface 339670010868 Tetratricopeptide repeat; Region: TPR_16; pfam13432 339670010869 TPR motif; other site 339670010870 TadE-like protein; Region: TadE; pfam07811 339670010871 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 339670010872 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 339670010873 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 339670010874 Ligand binding site; other site 339670010875 Putative Catalytic site; other site 339670010876 DXD motif; other site 339670010877 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 339670010878 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 339670010879 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 339670010880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010882 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 339670010883 dimerization interface [polypeptide binding]; other site 339670010884 substrate binding pocket [chemical binding]; other site 339670010885 Probable transposase; Region: OrfB_IS605; pfam01385 339670010886 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670010887 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670010888 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670010889 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010890 putative substrate translocation pore; other site 339670010891 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010892 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010894 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 339670010895 putative substrate binding pocket [chemical binding]; other site 339670010896 putative dimerization interface [polypeptide binding]; other site 339670010897 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 339670010898 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 339670010899 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 339670010900 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 339670010901 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 339670010902 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 339670010903 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 339670010904 tetrameric interface [polypeptide binding]; other site 339670010905 NAD binding site [chemical binding]; other site 339670010906 catalytic residues [active] 339670010907 shikimate transporter; Provisional; Region: PRK09952 339670010908 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670010909 putative substrate translocation pore; other site 339670010910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010912 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670010913 dimerization interface [polypeptide binding]; other site 339670010914 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 339670010915 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670010916 active site 339670010917 motif I; other site 339670010918 motif II; other site 339670010919 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 339670010920 GAF domain; Region: GAF; pfam01590 339670010921 PAS domain S-box; Region: sensory_box; TIGR00229 339670010922 PAS domain; Region: PAS; smart00091 339670010923 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670010924 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670010925 metal binding site [ion binding]; metal-binding site 339670010926 active site 339670010927 I-site; other site 339670010928 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670010929 Response regulator receiver domain; Region: Response_reg; pfam00072 339670010930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670010931 active site 339670010932 phosphorylation site [posttranslational modification] 339670010933 intermolecular recognition site; other site 339670010934 dimerization interface [polypeptide binding]; other site 339670010935 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670010936 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670010937 metal binding site [ion binding]; metal-binding site 339670010938 active site 339670010939 I-site; other site 339670010940 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 339670010941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670010942 active site 339670010943 phosphorylation site [posttranslational modification] 339670010944 intermolecular recognition site; other site 339670010945 CheB methylesterase; Region: CheB_methylest; pfam01339 339670010946 Protein of unknown function (DUF969); Region: DUF969; pfam06149 339670010947 Predicted membrane protein [Function unknown]; Region: COG3817 339670010948 Protein of unknown function (DUF979); Region: DUF979; pfam06166 339670010949 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 339670010950 L-asparaginase II; Region: Asparaginase_II; pfam06089 339670010951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670010952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670010953 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670010954 putative effector binding pocket; other site 339670010955 dimerization interface [polypeptide binding]; other site 339670010956 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 339670010957 Aspartase; Region: Aspartase; cd01357 339670010958 active sites [active] 339670010959 tetramer interface [polypeptide binding]; other site 339670010960 L-asparagine permease; Provisional; Region: PRK15049 339670010961 putative hydrolase; Provisional; Region: PRK11460 339670010962 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 339670010963 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 339670010964 oligomeric interface; other site 339670010965 putative active site [active] 339670010966 homodimer interface [polypeptide binding]; other site 339670010967 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 339670010968 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670010969 dimerization interface [polypeptide binding]; other site 339670010970 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 339670010971 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 339670010972 putative binding surface; other site 339670010973 active site 339670010974 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670010975 ATP binding site [chemical binding]; other site 339670010976 Mg2+ binding site [ion binding]; other site 339670010977 G-X-G motif; other site 339670010978 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670010979 putative CheW interface [polypeptide binding]; other site 339670010980 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 339670010981 Response regulator receiver domain; Region: Response_reg; pfam00072 339670010982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670010983 active site 339670010984 phosphorylation site [posttranslational modification] 339670010985 intermolecular recognition site; other site 339670010986 dimerization interface [polypeptide binding]; other site 339670010987 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 339670010988 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 339670010989 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 339670010990 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 339670010991 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 339670010992 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 339670010993 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 339670010994 ImpE protein; Region: ImpE; pfam07024 339670010995 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 339670010996 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670010997 Walker A motif; other site 339670010998 ATP binding site [chemical binding]; other site 339670010999 Walker B motif; other site 339670011000 arginine finger; other site 339670011001 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670011002 Walker A motif; other site 339670011003 ATP binding site [chemical binding]; other site 339670011004 Walker B motif; other site 339670011005 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 339670011006 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 339670011007 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 339670011008 Protein of unknown function (DUF877); Region: DUF877; pfam05943 339670011009 Protein of unknown function (DUF796); Region: DUF796; pfam05638 339670011010 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 339670011011 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 339670011012 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 339670011013 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 339670011014 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 339670011015 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 339670011016 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 339670011017 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 339670011018 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 339670011019 PAAR motif; Region: PAAR_motif; pfam05488 339670011020 hypothetical protein; Provisional; Region: PRK08126 339670011021 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 339670011022 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670011023 ligand binding site [chemical binding]; other site 339670011024 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 339670011025 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 339670011026 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 339670011027 hypothetical protein; Provisional; Region: PRK07033 339670011028 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 339670011029 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670011030 ligand binding site [chemical binding]; other site 339670011031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670011032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011033 LysR substrate binding domain; Region: LysR_substrate; pfam03466 339670011034 dimerization interface [polypeptide binding]; other site 339670011035 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670011036 putative substrate translocation pore; other site 339670011037 enoyl-CoA hydratase; Validated; Region: PRK08139 339670011038 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670011039 substrate binding site [chemical binding]; other site 339670011040 oxyanion hole (OAH) forming residues; other site 339670011041 trimer interface [polypeptide binding]; other site 339670011042 alanine racemase; Reviewed; Region: PRK13340 339670011043 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 339670011044 active site 339670011045 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 339670011046 substrate binding site [chemical binding]; other site 339670011047 catalytic residues [active] 339670011048 dimer interface [polypeptide binding]; other site 339670011049 MAPEG family; Region: MAPEG; cl09190 339670011050 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670011051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011052 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670011053 dimerization interface [polypeptide binding]; other site 339670011054 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 339670011055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670011056 Walker A/P-loop; other site 339670011057 ATP binding site [chemical binding]; other site 339670011058 Q-loop/lid; other site 339670011059 ABC transporter signature motif; other site 339670011060 Walker B; other site 339670011061 D-loop; other site 339670011062 H-loop/switch region; other site 339670011063 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 339670011064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670011065 Walker A/P-loop; other site 339670011066 ATP binding site [chemical binding]; other site 339670011067 Q-loop/lid; other site 339670011068 ABC transporter signature motif; other site 339670011069 Walker B; other site 339670011070 D-loop; other site 339670011071 H-loop/switch region; other site 339670011072 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 339670011073 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 339670011074 hypothetical protein; Provisional; Region: PRK07483 339670011075 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670011076 inhibitor-cofactor binding pocket; inhibition site 339670011077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670011078 catalytic residue [active] 339670011079 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 339670011080 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 339670011081 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 339670011082 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 339670011083 catalytic residue [active] 339670011084 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 339670011085 catalytic residues [active] 339670011086 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670011087 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670011088 peroxiredoxin; Region: AhpC; TIGR03137 339670011089 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 339670011090 dimer interface [polypeptide binding]; other site 339670011091 decamer (pentamer of dimers) interface [polypeptide binding]; other site 339670011092 catalytic triad [active] 339670011093 peroxidatic and resolving cysteines [active] 339670011094 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670011095 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670011096 substrate binding pocket [chemical binding]; other site 339670011097 membrane-bound complex binding site; other site 339670011098 hinge residues; other site 339670011099 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670011100 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 339670011101 aspartate racemase; Region: asp_race; TIGR00035 339670011102 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 339670011103 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670011104 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011105 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670011106 dimerization interface [polypeptide binding]; other site 339670011107 substrate binding pocket [chemical binding]; other site 339670011108 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670011109 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670011110 dimerization interface [polypeptide binding]; other site 339670011111 ligand binding site [chemical binding]; other site 339670011112 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 339670011113 allantoate amidohydrolase; Reviewed; Region: PRK12891 339670011114 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 339670011115 active site 339670011116 metal binding site [ion binding]; metal-binding site 339670011117 dimer interface [polypeptide binding]; other site 339670011118 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670011119 Cytochrome c; Region: Cytochrom_C; pfam00034 339670011120 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 339670011121 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 339670011122 glutaminase active site [active] 339670011123 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 339670011124 dimer interface [polypeptide binding]; other site 339670011125 active site 339670011126 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 339670011127 dimer interface [polypeptide binding]; other site 339670011128 active site 339670011129 Serine carboxypeptidase S28; Region: Peptidase_S28; pfam05577 339670011130 N-glycosyltransferase; Provisional; Region: PRK11204 339670011131 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 339670011132 DXD motif; other site 339670011133 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 339670011134 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 339670011135 putative active site [active] 339670011136 putative metal binding site [ion binding]; other site 339670011137 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 339670011138 cell density-dependent motility repressor; Provisional; Region: PRK10082 339670011139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011140 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670011141 dimerization interface [polypeptide binding]; other site 339670011142 Uncharacterized conserved protein [Function unknown]; Region: COG2308 339670011143 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 339670011144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 339670011145 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 339670011146 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 339670011147 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 339670011148 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 339670011149 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 339670011150 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 339670011151 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 339670011152 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 339670011153 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 339670011154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 339670011155 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 339670011156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 339670011157 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 339670011158 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 339670011159 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 339670011160 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 339670011161 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 339670011162 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 339670011163 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670011164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011165 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670011166 putative effector binding pocket; other site 339670011167 dimerization interface [polypeptide binding]; other site 339670011168 short chain dehydrogenase; Provisional; Region: PRK06500 339670011169 classical (c) SDRs; Region: SDR_c; cd05233 339670011170 NAD(P) binding site [chemical binding]; other site 339670011171 active site 339670011172 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670011173 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 339670011174 C-terminal domain interface [polypeptide binding]; other site 339670011175 GSH binding site (G-site) [chemical binding]; other site 339670011176 dimer interface [polypeptide binding]; other site 339670011177 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 339670011178 N-terminal domain interface [polypeptide binding]; other site 339670011179 dimer interface [polypeptide binding]; other site 339670011180 substrate binding pocket (H-site) [chemical binding]; other site 339670011181 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670011182 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670011183 catalytic residue [active] 339670011184 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 339670011185 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 339670011186 PYR/PP interface [polypeptide binding]; other site 339670011187 dimer interface [polypeptide binding]; other site 339670011188 TPP binding site [chemical binding]; other site 339670011189 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 339670011190 TPP-binding site; other site 339670011191 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 339670011192 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 339670011193 tetramer interface [polypeptide binding]; other site 339670011194 active site 339670011195 Mg2+/Mn2+ binding site [ion binding]; other site 339670011196 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 339670011197 active site 339670011198 metal-binding site 339670011199 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 339670011200 active site 339670011201 metal-binding site 339670011202 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 339670011203 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 339670011204 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 339670011205 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 339670011206 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 339670011207 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 339670011208 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 339670011209 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 339670011210 DNA binding residues [nucleotide binding] 339670011211 putative dimer interface [polypeptide binding]; other site 339670011212 putative metal binding residues [ion binding]; other site 339670011213 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 339670011214 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 339670011215 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 339670011216 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670011217 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 339670011218 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 339670011219 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670011220 DNA binding residues [nucleotide binding] 339670011221 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 339670011222 Bacterial SH3 domain; Region: SH3_3; pfam08239 339670011223 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 339670011224 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 339670011225 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 339670011226 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 339670011227 dimer interface [polypeptide binding]; other site 339670011228 NADP binding site [chemical binding]; other site 339670011229 catalytic residues [active] 339670011230 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 339670011231 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 339670011232 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 339670011233 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670011234 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670011235 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670011236 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 339670011237 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 339670011238 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670011239 dimerization interface [polypeptide binding]; other site 339670011240 putative DNA binding site [nucleotide binding]; other site 339670011241 putative Zn2+ binding site [ion binding]; other site 339670011242 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 339670011243 Predicted transporter component [General function prediction only]; Region: COG2391 339670011244 Predicted transporter component [General function prediction only]; Region: COG2391 339670011245 Sulphur transport; Region: Sulf_transp; pfam04143 339670011246 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670011247 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670011248 DNA-binding site [nucleotide binding]; DNA binding site 339670011249 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670011250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670011251 homodimer interface [polypeptide binding]; other site 339670011252 catalytic residue [active] 339670011253 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 339670011254 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 339670011255 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 339670011256 active site 339670011257 metal binding site [ion binding]; metal-binding site 339670011258 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670011259 S-adenosylmethionine binding site [chemical binding]; other site 339670011260 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670011261 trimer interface [polypeptide binding]; other site 339670011262 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670011263 eyelet of channel; other site 339670011264 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 339670011265 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 339670011266 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 339670011267 putative active site [active] 339670011268 putative catalytic site [active] 339670011269 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670011270 D-galactonate transporter; Region: 2A0114; TIGR00893 339670011271 putative substrate translocation pore; other site 339670011272 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 339670011273 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 339670011274 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 339670011275 putative active site [active] 339670011276 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 339670011277 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 339670011278 catalytic nucleophile [active] 339670011279 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 339670011280 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670011281 Walker A/P-loop; other site 339670011282 ATP binding site [chemical binding]; other site 339670011283 Q-loop/lid; other site 339670011284 ABC transporter signature motif; other site 339670011285 Walker B; other site 339670011286 D-loop; other site 339670011287 H-loop/switch region; other site 339670011288 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 339670011289 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670011290 Walker A/P-loop; other site 339670011291 ATP binding site [chemical binding]; other site 339670011292 Q-loop/lid; other site 339670011293 ABC transporter signature motif; other site 339670011294 Walker B; other site 339670011295 D-loop; other site 339670011296 H-loop/switch region; other site 339670011297 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 339670011298 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 339670011299 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 339670011300 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 339670011301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670011302 dimer interface [polypeptide binding]; other site 339670011303 conserved gate region; other site 339670011304 putative PBP binding loops; other site 339670011305 ABC-ATPase subunit interface; other site 339670011306 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 339670011307 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 339670011308 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670011309 dimer interface [polypeptide binding]; other site 339670011310 conserved gate region; other site 339670011311 putative PBP binding loops; other site 339670011312 ABC-ATPase subunit interface; other site 339670011313 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 339670011314 homodimer interface [polypeptide binding]; other site 339670011315 homotetramer interface [polypeptide binding]; other site 339670011316 active site pocket [active] 339670011317 cleavage site 339670011318 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 339670011319 SxDxEG motif; other site 339670011320 active site 339670011321 metal binding site [ion binding]; metal-binding site 339670011322 homopentamer interface [polypeptide binding]; other site 339670011323 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670011324 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670011325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670011326 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 339670011327 heterodimer interface [polypeptide binding]; other site 339670011328 active site 339670011329 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 339670011330 heterodimer interface [polypeptide binding]; other site 339670011331 multimer interface [polypeptide binding]; other site 339670011332 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 339670011333 active site 339670011334 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 339670011335 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 339670011336 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670011337 non-specific DNA binding site [nucleotide binding]; other site 339670011338 salt bridge; other site 339670011339 sequence-specific DNA binding site [nucleotide binding]; other site 339670011340 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 339670011341 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011342 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670011343 dimerization interface [polypeptide binding]; other site 339670011344 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 339670011345 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 339670011346 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 339670011347 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 339670011348 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 339670011349 Walker A/P-loop; other site 339670011350 ATP binding site [chemical binding]; other site 339670011351 Q-loop/lid; other site 339670011352 ABC transporter signature motif; other site 339670011353 Walker B; other site 339670011354 D-loop; other site 339670011355 H-loop/switch region; other site 339670011356 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 339670011357 Peptidase family M23; Region: Peptidase_M23; pfam01551 339670011358 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670011359 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670011360 putative transporter; Provisional; Region: PRK11021 339670011361 putative transporter; Provisional; Region: PRK11021 339670011362 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 339670011363 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 339670011364 ATP binding site [chemical binding]; other site 339670011365 putative Mg++ binding site [ion binding]; other site 339670011366 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670011367 nucleotide binding region [chemical binding]; other site 339670011368 ATP-binding site [chemical binding]; other site 339670011369 DEAD/H associated; Region: DEAD_assoc; pfam08494 339670011370 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 339670011371 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 339670011372 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 339670011373 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 339670011374 H-NS histone family; Region: Histone_HNS; pfam00816 339670011375 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 339670011376 Uncharacterized conserved protein [Function unknown]; Region: COG1739 339670011377 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 339670011378 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 339670011379 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 339670011380 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 339670011381 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 339670011382 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 339670011383 putative acyl-acceptor binding pocket; other site 339670011384 Phosphopantetheine attachment site; Region: PP-binding; cl09936 339670011385 acyl carrier protein; Provisional; Region: PRK05350 339670011386 Predicted membrane protein [Function unknown]; Region: COG4648 339670011387 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670011388 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 339670011389 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670011390 AMP binding site [chemical binding]; other site 339670011391 active site 339670011392 acyl-activating enzyme (AAE) consensus motif; other site 339670011393 acyl-activating enzyme (AAE) consensus motif; other site 339670011394 CoA binding site [chemical binding]; other site 339670011395 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 339670011396 active site 2 [active] 339670011397 dimer interface [polypeptide binding]; other site 339670011398 active site 1 [active] 339670011399 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 339670011400 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 339670011401 Ligand binding site; other site 339670011402 Putative Catalytic site; other site 339670011403 DXD motif; other site 339670011404 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 339670011405 putative acyl-acceptor binding pocket; other site 339670011406 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 339670011407 active sites [active] 339670011408 tetramer interface [polypeptide binding]; other site 339670011409 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 339670011410 active site 339670011411 Predicted exporter [General function prediction only]; Region: COG4258 339670011412 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 339670011413 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 339670011414 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 339670011415 dimer interface [polypeptide binding]; other site 339670011416 active site 339670011417 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 339670011418 active site 2 [active] 339670011419 active site 1 [active] 339670011420 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 339670011421 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 339670011422 NAD(P) binding site [chemical binding]; other site 339670011423 homotetramer interface [polypeptide binding]; other site 339670011424 homodimer interface [polypeptide binding]; other site 339670011425 active site 339670011426 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 339670011427 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 339670011428 dimer interface [polypeptide binding]; other site 339670011429 active site 339670011430 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 339670011431 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 339670011432 dimer interface [polypeptide binding]; other site 339670011433 active site 339670011434 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 339670011435 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 339670011436 Methyltransferase domain; Region: Methyltransf_23; pfam13489 339670011437 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670011438 S-adenosylmethionine binding site [chemical binding]; other site 339670011439 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 339670011440 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 339670011441 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 339670011442 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 339670011443 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 339670011444 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 339670011445 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 339670011446 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 339670011447 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 339670011448 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 339670011449 SLBB domain; Region: SLBB; pfam10531 339670011450 Chain length determinant protein; Region: Wzz; pfam02706 339670011451 tyrosine kinase; Provisional; Region: PRK11519 339670011452 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 339670011453 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 339670011454 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 339670011455 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 339670011456 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 339670011457 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 339670011458 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 339670011459 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670011460 putative ADP-binding pocket [chemical binding]; other site 339670011461 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 339670011462 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 339670011463 active site 339670011464 Right handed beta helix region; Region: Beta_helix; pfam13229 339670011465 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 339670011466 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 339670011467 Substrate binding site; other site 339670011468 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 339670011469 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 339670011470 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 339670011471 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670011472 Walker A motif; other site 339670011473 ATP binding site [chemical binding]; other site 339670011474 Walker B motif; other site 339670011475 arginine finger; other site 339670011476 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670011477 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 339670011478 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 339670011479 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 339670011480 dimer interface [polypeptide binding]; other site 339670011481 motif 1; other site 339670011482 active site 339670011483 motif 2; other site 339670011484 motif 3; other site 339670011485 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670011486 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670011487 active site 339670011488 acyl carrier protein; Provisional; Region: PRK07081 339670011489 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 339670011490 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 339670011491 ligand binding site [chemical binding]; other site 339670011492 flexible hinge region; other site 339670011493 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 339670011494 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 339670011495 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 339670011496 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 339670011497 non-specific DNA interactions [nucleotide binding]; other site 339670011498 DNA binding site [nucleotide binding] 339670011499 sequence specific DNA binding site [nucleotide binding]; other site 339670011500 putative cAMP binding site [chemical binding]; other site 339670011501 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 339670011502 Bacterial sugar transferase; Region: Bac_transf; pfam02397 339670011503 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 339670011504 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 339670011505 hypothetical protein; Provisional; Region: PRK08609 339670011506 active site 339670011507 primer binding site [nucleotide binding]; other site 339670011508 NTP binding site [chemical binding]; other site 339670011509 metal binding triad [ion binding]; metal-binding site 339670011510 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 339670011511 active site 339670011512 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 339670011513 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 339670011514 hexamer interface [polypeptide binding]; other site 339670011515 ligand binding site [chemical binding]; other site 339670011516 putative active site [active] 339670011517 NAD(P) binding site [chemical binding]; other site 339670011518 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 339670011519 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 339670011520 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 339670011521 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670011522 Cytochrome c; Region: Cytochrom_C; pfam00034 339670011523 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670011524 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670011525 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 339670011526 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 339670011527 putative cation:proton antiport protein; Provisional; Region: PRK10669 339670011528 TrkA-N domain; Region: TrkA_N; pfam02254 339670011529 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 339670011530 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 339670011531 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 339670011532 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 339670011533 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 339670011534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670011535 NAD(P) binding site [chemical binding]; other site 339670011536 active site 339670011537 MarR family; Region: MarR_2; cl17246 339670011538 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670011539 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 339670011540 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 339670011541 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 339670011542 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 339670011543 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 339670011544 NAD binding site [chemical binding]; other site 339670011545 catalytic residues [active] 339670011546 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 339670011547 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 339670011548 putative active site [active] 339670011549 putative metal binding site [ion binding]; other site 339670011550 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 339670011551 putative substrate binding pocket [chemical binding]; other site 339670011552 trimer interface [polypeptide binding]; other site 339670011553 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 339670011554 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 339670011555 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670011556 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670011557 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 339670011558 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 339670011559 NAD(P) binding site [chemical binding]; other site 339670011560 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670011561 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670011562 trimer interface [polypeptide binding]; other site 339670011563 eyelet of channel; other site 339670011564 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 339670011565 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 339670011566 Walker A/P-loop; other site 339670011567 ATP binding site [chemical binding]; other site 339670011568 Q-loop/lid; other site 339670011569 ABC transporter signature motif; other site 339670011570 Walker B; other site 339670011571 D-loop; other site 339670011572 H-loop/switch region; other site 339670011573 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 339670011574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670011575 dimer interface [polypeptide binding]; other site 339670011576 conserved gate region; other site 339670011577 ABC-ATPase subunit interface; other site 339670011578 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670011579 dimer interface [polypeptide binding]; other site 339670011580 conserved gate region; other site 339670011581 putative PBP binding loops; other site 339670011582 ABC-ATPase subunit interface; other site 339670011583 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 339670011584 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 339670011585 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670011586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670011587 DNA-binding site [nucleotide binding]; DNA binding site 339670011588 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670011589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670011590 homodimer interface [polypeptide binding]; other site 339670011591 catalytic residue [active] 339670011592 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670011593 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 339670011594 putative substrate translocation pore; other site 339670011595 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 339670011596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670011597 active site 339670011598 phosphorylation site [posttranslational modification] 339670011599 intermolecular recognition site; other site 339670011600 dimerization interface [polypeptide binding]; other site 339670011601 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670011602 DNA binding site [nucleotide binding] 339670011603 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 339670011604 HAMP domain; Region: HAMP; pfam00672 339670011605 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670011606 dimer interface [polypeptide binding]; other site 339670011607 phosphorylation site [posttranslational modification] 339670011608 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670011609 ATP binding site [chemical binding]; other site 339670011610 Mg2+ binding site [ion binding]; other site 339670011611 G-X-G motif; other site 339670011612 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 339670011613 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 339670011614 NADP binding site [chemical binding]; other site 339670011615 dimer interface [polypeptide binding]; other site 339670011616 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670011617 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670011618 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 339670011619 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 339670011620 MOSC domain; Region: MOSC; pfam03473 339670011621 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 339670011622 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670011623 membrane-bound complex binding site; other site 339670011624 Cytochrome c; Region: Cytochrom_C; pfam00034 339670011625 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 339670011626 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 339670011627 Walker A/P-loop; other site 339670011628 ATP binding site [chemical binding]; other site 339670011629 Q-loop/lid; other site 339670011630 ABC transporter signature motif; other site 339670011631 Walker B; other site 339670011632 D-loop; other site 339670011633 H-loop/switch region; other site 339670011634 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 339670011635 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670011636 dimer interface [polypeptide binding]; other site 339670011637 conserved gate region; other site 339670011638 putative PBP binding loops; other site 339670011639 ABC-ATPase subunit interface; other site 339670011640 NMT1-like family; Region: NMT1_2; pfam13379 339670011641 NMT1/THI5 like; Region: NMT1; pfam09084 339670011642 hypothetical protein; Provisional; Region: PRK06208 339670011643 active site 339670011644 intersubunit interface [polypeptide binding]; other site 339670011645 Zn2+ binding site [ion binding]; other site 339670011646 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 339670011647 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 339670011648 dimer interface [polypeptide binding]; other site 339670011649 active site 339670011650 non-prolyl cis peptide bond; other site 339670011651 insertion regions; other site 339670011652 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670011653 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 339670011654 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 339670011655 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670011656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011657 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670011658 dimerization interface [polypeptide binding]; other site 339670011659 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 339670011660 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 339670011661 active site residue [active] 339670011662 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 339670011663 active site residue [active] 339670011664 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 339670011665 active site residue [active] 339670011666 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 339670011667 active site residue [active] 339670011668 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 339670011669 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 339670011670 putative active site [active] 339670011671 catalytic site [active] 339670011672 putative metal binding site [ion binding]; other site 339670011673 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 339670011674 active site lid residues [active] 339670011675 substrate binding pocket [chemical binding]; other site 339670011676 catalytic residues [active] 339670011677 substrate-Mg2+ binding site; other site 339670011678 aspartate-rich region 1; other site 339670011679 aspartate-rich region 2; other site 339670011680 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670011681 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670011682 trimer interface [polypeptide binding]; other site 339670011683 eyelet of channel; other site 339670011684 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670011685 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 339670011686 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 339670011687 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 339670011688 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 339670011689 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 339670011690 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 339670011691 Walker A/P-loop; other site 339670011692 ATP binding site [chemical binding]; other site 339670011693 Q-loop/lid; other site 339670011694 ABC transporter signature motif; other site 339670011695 Walker B; other site 339670011696 D-loop; other site 339670011697 H-loop/switch region; other site 339670011698 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670011699 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670011700 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670011701 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 339670011702 Uncharacterized conserved protein [Function unknown]; Region: COG2128 339670011703 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670011704 DNA-binding site [nucleotide binding]; DNA binding site 339670011705 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670011706 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670011707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670011708 homodimer interface [polypeptide binding]; other site 339670011709 catalytic residue [active] 339670011710 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 339670011711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011712 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670011713 dimerization interface [polypeptide binding]; other site 339670011714 short chain dehydrogenase; Provisional; Region: PRK06500 339670011715 classical (c) SDRs; Region: SDR_c; cd05233 339670011716 NAD(P) binding site [chemical binding]; other site 339670011717 active site 339670011718 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 339670011719 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 339670011720 substrate binding [chemical binding]; other site 339670011721 active site 339670011722 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 339670011723 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 339670011724 active site 339670011725 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670011726 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670011727 DNA binding site [nucleotide binding] 339670011728 domain linker motif; other site 339670011729 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 339670011730 ligand binding site [chemical binding]; other site 339670011731 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 339670011732 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 339670011733 potential catalytic triad [active] 339670011734 conserved cys residue [active] 339670011735 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670011736 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 339670011737 active site 339670011738 FMN binding site [chemical binding]; other site 339670011739 substrate binding site [chemical binding]; other site 339670011740 homotetramer interface [polypeptide binding]; other site 339670011741 catalytic residue [active] 339670011742 Domain of unknown function DUF20; Region: UPF0118; pfam01594 339670011743 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 339670011744 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 339670011745 short chain dehydrogenase; Provisional; Region: PRK06523 339670011746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670011747 NAD(P) binding site [chemical binding]; other site 339670011748 active site 339670011749 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670011750 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670011751 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670011752 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670011753 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670011754 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 339670011755 HAMP domain; Region: HAMP; pfam00672 339670011756 dimerization interface [polypeptide binding]; other site 339670011757 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670011758 dimer interface [polypeptide binding]; other site 339670011759 phosphorylation site [posttranslational modification] 339670011760 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670011761 ATP binding site [chemical binding]; other site 339670011762 Mg2+ binding site [ion binding]; other site 339670011763 G-X-G motif; other site 339670011764 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 339670011765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670011766 active site 339670011767 phosphorylation site [posttranslational modification] 339670011768 intermolecular recognition site; other site 339670011769 dimerization interface [polypeptide binding]; other site 339670011770 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670011771 DNA binding site [nucleotide binding] 339670011772 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670011773 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 339670011774 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670011775 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 339670011776 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 339670011777 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 339670011778 ligand binding site [chemical binding]; other site 339670011779 flexible hinge region; other site 339670011780 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 339670011781 acyl-CoA synthetase; Validated; Region: PRK08162 339670011782 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 339670011783 acyl-activating enzyme (AAE) consensus motif; other site 339670011784 putative active site [active] 339670011785 AMP binding site [chemical binding]; other site 339670011786 putative CoA binding site [chemical binding]; other site 339670011787 Cache domain; Region: Cache_1; pfam02743 339670011788 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 339670011789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670011790 dimer interface [polypeptide binding]; other site 339670011791 putative CheW interface [polypeptide binding]; other site 339670011792 Predicted membrane protein [Function unknown]; Region: COG1238 339670011793 voltage-gated potassium channel; Provisional; Region: PRK10537 339670011794 Ion channel; Region: Ion_trans_2; pfam07885 339670011795 TrkA-N domain; Region: TrkA_N; pfam02254 339670011796 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670011797 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670011798 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 339670011799 putative DNA binding site [nucleotide binding]; other site 339670011800 putative Zn2+ binding site [ion binding]; other site 339670011801 AsnC family; Region: AsnC_trans_reg; pfam01037 339670011802 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670011803 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670011804 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 339670011805 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 339670011806 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670011807 putative substrate translocation pore; other site 339670011808 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 339670011809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670011810 NAD(P) binding site [chemical binding]; other site 339670011811 active site 339670011812 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670011813 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 339670011814 conserved cys residue [active] 339670011815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670011816 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 339670011817 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670011818 MarR family; Region: MarR; pfam01047 339670011819 H+ Antiporter protein; Region: 2A0121; TIGR00900 339670011820 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670011821 putative substrate translocation pore; other site 339670011822 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670011823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011824 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670011825 dimerization interface [polypeptide binding]; other site 339670011826 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 339670011827 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670011828 inhibitor-cofactor binding pocket; inhibition site 339670011829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670011830 catalytic residue [active] 339670011831 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 339670011832 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 339670011833 tetrameric interface [polypeptide binding]; other site 339670011834 NAD binding site [chemical binding]; other site 339670011835 catalytic residues [active] 339670011836 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 339670011837 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 339670011838 Predicted permeases [General function prediction only]; Region: COG0679 339670011839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670011840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011841 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 339670011842 putative dimerization interface [polypeptide binding]; other site 339670011843 SnoaL-like domain; Region: SnoaL_2; pfam12680 339670011844 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670011845 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670011846 DNA binding residues [nucleotide binding] 339670011847 dimerization interface [polypeptide binding]; other site 339670011848 amino acid transporter; Region: 2A0306; TIGR00909 339670011849 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 339670011850 homodimer interface [polypeptide binding]; other site 339670011851 homotetramer interface [polypeptide binding]; other site 339670011852 active site pocket [active] 339670011853 cleavage site 339670011854 Fusaric acid resistance protein family; Region: FUSC; pfam04632 339670011855 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 339670011856 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670011857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670011858 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670011859 putative effector binding pocket; other site 339670011860 dimerization interface [polypeptide binding]; other site 339670011861 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670011862 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670011863 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670011864 trimer interface [polypeptide binding]; other site 339670011865 eyelet of channel; other site 339670011866 Probable transposase; Region: OrfB_IS605; pfam01385 339670011867 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670011868 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670011869 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 339670011870 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670011871 cytosine deaminase; Provisional; Region: PRK09230 339670011872 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 339670011873 active site 339670011874 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 339670011875 putative ion selectivity filter; other site 339670011876 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 339670011877 putative pore gating glutamate residue; other site 339670011878 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 339670011879 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670011880 D-galactonate transporter; Region: 2A0114; TIGR00893 339670011881 putative substrate translocation pore; other site 339670011882 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 339670011883 short chain dehydrogenase; Provisional; Region: PRK12829 339670011884 classical (c) SDRs; Region: SDR_c; cd05233 339670011885 NAD(P) binding site [chemical binding]; other site 339670011886 active site 339670011887 Transcriptional regulators [Transcription]; Region: GntR; COG1802 339670011888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 339670011889 FCD domain; Region: FCD; pfam07729 339670011890 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670011891 sequence-specific DNA binding site [nucleotide binding]; other site 339670011892 salt bridge; other site 339670011893 HipA N-terminal domain; Region: Couple_hipA; cl11853 339670011894 HipA-like N-terminal domain; Region: HipA_N; pfam07805 339670011895 HipA-like C-terminal domain; Region: HipA_C; pfam07804 339670011896 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 339670011897 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 339670011898 Phosphoesterase family; Region: Phosphoesterase; pfam04185 339670011899 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 339670011900 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 339670011901 EamA-like transporter family; Region: EamA; pfam00892 339670011902 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670011903 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 339670011904 putative DNA binding site [nucleotide binding]; other site 339670011905 putative Zn2+ binding site [ion binding]; other site 339670011906 AsnC family; Region: AsnC_trans_reg; pfam01037 339670011907 aromatic amino acid transporter; Provisional; Region: PRK10238 339670011908 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 339670011909 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670011910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670011911 homodimer interface [polypeptide binding]; other site 339670011912 catalytic residue [active] 339670011913 Protein of unknown function, DUF488; Region: DUF488; cl01246 339670011914 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 339670011915 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 339670011916 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 339670011917 ligand binding site [chemical binding]; other site 339670011918 flexible hinge region; other site 339670011919 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 339670011920 putative switch regulator; other site 339670011921 non-specific DNA interactions [nucleotide binding]; other site 339670011922 DNA binding site [nucleotide binding] 339670011923 sequence specific DNA binding site [nucleotide binding]; other site 339670011924 putative cAMP binding site [chemical binding]; other site 339670011925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670011926 phosphorylation site [posttranslational modification] 339670011927 intermolecular recognition site; other site 339670011928 ornithine cyclodeaminase; Validated; Region: PRK07340 339670011929 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 339670011930 Transcriptional regulators [Transcription]; Region: FadR; COG2186 339670011931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670011932 DNA-binding site [nucleotide binding]; DNA binding site 339670011933 FCD domain; Region: FCD; pfam07729 339670011934 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670011935 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670011936 dimerization interface [polypeptide binding]; other site 339670011937 ligand binding site [chemical binding]; other site 339670011938 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 339670011939 Proline racemase; Region: Pro_racemase; pfam05544 339670011940 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 339670011941 Transglycosylase; Region: Transgly; pfam00912 339670011942 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 339670011943 PilZ domain; Region: PilZ; pfam07238 339670011944 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670011945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 339670011946 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670011947 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670011948 active site 339670011949 phosphorylation site [posttranslational modification] 339670011950 intermolecular recognition site; other site 339670011951 dimerization interface [polypeptide binding]; other site 339670011952 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670011953 DNA binding residues [nucleotide binding] 339670011954 dimerization interface [polypeptide binding]; other site 339670011955 PAS domain S-box; Region: sensory_box; TIGR00229 339670011956 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670011957 putative active site [active] 339670011958 heme pocket [chemical binding]; other site 339670011959 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 339670011960 Histidine kinase; Region: HisKA_3; pfam07730 339670011961 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670011962 ATP binding site [chemical binding]; other site 339670011963 Mg2+ binding site [ion binding]; other site 339670011964 G-X-G motif; other site 339670011965 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670011966 Ligand Binding Site [chemical binding]; other site 339670011967 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 339670011968 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 339670011969 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 339670011970 active site residue [active] 339670011971 haemagglutination activity domain; Region: Haemagg_act; pfam05860 339670011972 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 339670011973 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 339670011974 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 339670011975 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 339670011976 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 339670011977 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 339670011978 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 339670011979 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670011980 Ligand Binding Site [chemical binding]; other site 339670011981 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670011982 Ligand Binding Site [chemical binding]; other site 339670011983 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 339670011984 Cache domain; Region: Cache_1; pfam02743 339670011985 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670011986 dimerization interface [polypeptide binding]; other site 339670011987 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 339670011988 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670011989 dimer interface [polypeptide binding]; other site 339670011990 putative CheW interface [polypeptide binding]; other site 339670011991 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 339670011992 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670011993 Walker A motif; other site 339670011994 ATP binding site [chemical binding]; other site 339670011995 Walker B motif; other site 339670011996 arginine finger; other site 339670011997 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670011998 PAS fold; Region: PAS; pfam00989 339670011999 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670012000 putative active site [active] 339670012001 heme pocket [chemical binding]; other site 339670012002 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670012003 dimer interface [polypeptide binding]; other site 339670012004 phosphorylation site [posttranslational modification] 339670012005 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670012006 ATP binding site [chemical binding]; other site 339670012007 G-X-G motif; other site 339670012008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670012009 active site 339670012010 phosphorylation site [posttranslational modification] 339670012011 intermolecular recognition site; other site 339670012012 dimerization interface [polypeptide binding]; other site 339670012013 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 339670012014 PRC-barrel domain; Region: PRC; pfam05239 339670012015 FOG: CBS domain [General function prediction only]; Region: COG0517 339670012016 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 339670012017 MltA-interacting protein MipA; Region: MipA; cl01504 339670012018 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 339670012019 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 339670012020 DEAD_2; Region: DEAD_2; pfam06733 339670012021 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 339670012022 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 339670012023 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 339670012024 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670012025 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 339670012026 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 339670012027 putative active site [active] 339670012028 shikimate transporter; Provisional; Region: PRK09952 339670012029 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012030 putative substrate translocation pore; other site 339670012031 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 339670012032 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 339670012033 dimer interface [polypeptide binding]; other site 339670012034 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 339670012035 active site 339670012036 Fe binding site [ion binding]; other site 339670012037 HipA N-terminal domain; Region: couple_hipA; TIGR03071 339670012038 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 339670012039 HipA-like N-terminal domain; Region: HipA_N; pfam07805 339670012040 HipA-like C-terminal domain; Region: HipA_C; pfam07804 339670012041 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670012042 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 339670012043 salt bridge; other site 339670012044 non-specific DNA binding site [nucleotide binding]; other site 339670012045 sequence-specific DNA binding site [nucleotide binding]; other site 339670012046 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 339670012047 Cation efflux family; Region: Cation_efflux; cl00316 339670012048 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 339670012049 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 339670012050 putative NAD(P) binding site [chemical binding]; other site 339670012051 putative substrate binding site [chemical binding]; other site 339670012052 catalytic Zn binding site [ion binding]; other site 339670012053 structural Zn binding site [ion binding]; other site 339670012054 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 339670012055 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 339670012056 ligand binding site [chemical binding]; other site 339670012057 flexible hinge region; other site 339670012058 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 339670012059 putative switch regulator; other site 339670012060 non-specific DNA interactions [nucleotide binding]; other site 339670012061 DNA binding site [nucleotide binding] 339670012062 sequence specific DNA binding site [nucleotide binding]; other site 339670012063 putative cAMP binding site [chemical binding]; other site 339670012064 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670012065 Ligand Binding Site [chemical binding]; other site 339670012066 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670012067 Ligand Binding Site [chemical binding]; other site 339670012068 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670012069 Ligand Binding Site [chemical binding]; other site 339670012070 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670012071 Ligand Binding Site [chemical binding]; other site 339670012072 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 339670012073 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670012074 Ligand Binding Site [chemical binding]; other site 339670012075 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670012076 Ligand Binding Site [chemical binding]; other site 339670012077 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 339670012078 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 339670012079 NAD(P) binding site [chemical binding]; other site 339670012080 homotetramer interface [polypeptide binding]; other site 339670012081 homodimer interface [polypeptide binding]; other site 339670012082 active site 339670012083 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 339670012084 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 339670012085 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 339670012086 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 339670012087 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 339670012088 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 339670012089 catalytic Zn binding site [ion binding]; other site 339670012090 structural Zn binding site [ion binding]; other site 339670012091 NAD(P) binding site [chemical binding]; other site 339670012092 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 339670012093 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670012094 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670012095 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 339670012096 Prostaglandin dehydrogenases; Region: PGDH; cd05288 339670012097 NAD(P) binding site [chemical binding]; other site 339670012098 substrate binding site [chemical binding]; other site 339670012099 dimer interface [polypeptide binding]; other site 339670012100 Uncharacterized conserved protein [Function unknown]; Region: COG1359 339670012101 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 339670012102 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670012103 catalytic loop [active] 339670012104 iron binding site [ion binding]; other site 339670012105 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670012106 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670012107 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 339670012108 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 339670012109 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670012110 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670012111 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670012112 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 339670012113 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670012114 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670012115 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 339670012116 tetramerization interface [polypeptide binding]; other site 339670012117 NAD(P) binding site [chemical binding]; other site 339670012118 catalytic residues [active] 339670012119 Homeodomain-like domain; Region: HTH_23; pfam13384 339670012120 Winged helix-turn helix; Region: HTH_29; pfam13551 339670012121 Homeodomain-like domain; Region: HTH_32; pfam13565 339670012122 Integrase core domain; Region: rve; pfam00665 339670012123 Helix-turn-helix domain; Region: HTH_28; pfam13518 339670012124 Winged helix-turn helix; Region: HTH_29; pfam13551 339670012125 Homeodomain-like domain; Region: HTH_32; pfam13565 339670012126 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 339670012127 trimer interface [polypeptide binding]; other site 339670012128 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 339670012129 trimer interface [polypeptide binding]; other site 339670012130 YadA-like C-terminal region; Region: YadA; pfam03895 339670012131 Winged helix-turn helix; Region: HTH_29; pfam13551 339670012132 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 339670012133 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 339670012134 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 339670012135 active site 339670012136 Zn binding site [ion binding]; other site 339670012137 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 339670012138 substrate binding site [chemical binding]; other site 339670012139 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 339670012140 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 339670012141 FMN binding site [chemical binding]; other site 339670012142 active site 339670012143 substrate binding site [chemical binding]; other site 339670012144 catalytic residue [active] 339670012145 short chain dehydrogenase; Provisional; Region: PRK06500 339670012146 classical (c) SDRs; Region: SDR_c; cd05233 339670012147 NAD(P) binding site [chemical binding]; other site 339670012148 active site 339670012149 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 339670012150 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 339670012151 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670012152 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670012153 trimer interface [polypeptide binding]; other site 339670012154 eyelet of channel; other site 339670012155 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670012156 ligand binding site [chemical binding]; other site 339670012157 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670012158 Cytochrome c; Region: Cytochrom_C; pfam00034 339670012159 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 339670012160 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670012161 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 339670012162 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670012163 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 339670012164 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670012165 PAS domain; Region: PAS; smart00091 339670012166 PAS fold; Region: PAS_7; pfam12860 339670012167 putative active site [active] 339670012168 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670012169 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670012170 metal binding site [ion binding]; metal-binding site 339670012171 active site 339670012172 I-site; other site 339670012173 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 339670012174 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 339670012175 putative active site [active] 339670012176 Zn binding site [ion binding]; other site 339670012177 Predicted membrane protein (DUF2101); Region: DUF2101; cl01648 339670012178 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 339670012179 Double zinc ribbon; Region: DZR; pfam12773 339670012180 recombination associated protein; Reviewed; Region: rdgC; PRK00321 339670012181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670012182 Coenzyme A binding pocket [chemical binding]; other site 339670012183 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670012184 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670012185 substrate binding pocket [chemical binding]; other site 339670012186 membrane-bound complex binding site; other site 339670012187 hinge residues; other site 339670012188 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 339670012189 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 339670012190 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 339670012191 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 339670012192 active site 339670012193 non-prolyl cis peptide bond; other site 339670012194 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 339670012195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670012196 conserved gate region; other site 339670012197 dimer interface [polypeptide binding]; other site 339670012198 putative PBP binding loops; other site 339670012199 ABC-ATPase subunit interface; other site 339670012200 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 339670012201 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670012202 Walker A/P-loop; other site 339670012203 ATP binding site [chemical binding]; other site 339670012204 Q-loop/lid; other site 339670012205 ABC transporter signature motif; other site 339670012206 Walker B; other site 339670012207 D-loop; other site 339670012208 H-loop/switch region; other site 339670012209 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670012210 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670012211 substrate binding pocket [chemical binding]; other site 339670012212 membrane-bound complex binding site; other site 339670012213 hinge residues; other site 339670012214 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 339670012215 Acyltransferase family; Region: Acyl_transf_3; pfam01757 339670012216 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 339670012217 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670012218 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670012219 MarR family; Region: MarR; pfam01047 339670012220 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 339670012221 Asp-box motif; other site 339670012222 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 339670012223 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 339670012224 NAD binding site [chemical binding]; other site 339670012225 substrate binding site [chemical binding]; other site 339670012226 catalytic Zn binding site [ion binding]; other site 339670012227 tetramer interface [polypeptide binding]; other site 339670012228 structural Zn binding site [ion binding]; other site 339670012229 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 339670012230 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670012231 N-terminal plug; other site 339670012232 ligand-binding site [chemical binding]; other site 339670012233 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 339670012234 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 339670012235 active site 339670012236 homotetramer interface [polypeptide binding]; other site 339670012237 FtsH Extracellular; Region: FtsH_ext; pfam06480 339670012238 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 339670012239 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670012240 Walker A motif; other site 339670012241 ATP binding site [chemical binding]; other site 339670012242 Walker B motif; other site 339670012243 arginine finger; other site 339670012244 Peptidase family M41; Region: Peptidase_M41; pfam01434 339670012245 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 339670012246 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 339670012247 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 339670012248 active site 339670012249 substrate-binding site [chemical binding]; other site 339670012250 metal-binding site [ion binding] 339670012251 GTP binding site [chemical binding]; other site 339670012252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670012253 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 339670012254 tetramer interface [polypeptide binding]; other site 339670012255 active site 339670012256 Mg2+/Mn2+ binding site [ion binding]; other site 339670012257 isocitrate lyase; Region: PLN02892 339670012258 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 339670012259 putative deacylase active site [active] 339670012260 YheO-like PAS domain; Region: PAS_6; pfam08348 339670012261 HTH domain; Region: HTH_22; pfam13309 339670012262 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 339670012263 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 339670012264 tetramer interface [polypeptide binding]; other site 339670012265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670012266 catalytic residue [active] 339670012267 hypothetical protein; Provisional; Region: PRK06194 339670012268 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670012269 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 339670012270 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670012271 N-terminal plug; other site 339670012272 ligand-binding site [chemical binding]; other site 339670012273 LysE type translocator; Region: LysE; cl00565 339670012274 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670012275 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670012276 putative DNA binding site [nucleotide binding]; other site 339670012277 putative Zn2+ binding site [ion binding]; other site 339670012278 AsnC family; Region: AsnC_trans_reg; pfam01037 339670012279 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670012280 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 339670012281 dimer interface [polypeptide binding]; other site 339670012282 putative metal binding site [ion binding]; other site 339670012283 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670012284 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670012285 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670012286 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 339670012287 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 339670012288 molybdopterin cofactor binding site; other site 339670012289 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 339670012290 molybdopterin cofactor binding site; other site 339670012291 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 339670012292 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 339670012293 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 339670012294 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012295 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670012296 putative substrate translocation pore; other site 339670012297 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 339670012298 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 339670012299 putative trimer interface [polypeptide binding]; other site 339670012300 putative CoA binding site [chemical binding]; other site 339670012301 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 339670012302 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 339670012303 rRNA binding site [nucleotide binding]; other site 339670012304 predicted 30S ribosome binding site; other site 339670012305 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 339670012306 DNA-binding site [nucleotide binding]; DNA binding site 339670012307 RNA-binding motif; other site 339670012308 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 339670012309 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 339670012310 oligomeric interface; other site 339670012311 putative active site [active] 339670012312 homodimer interface [polypeptide binding]; other site 339670012313 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 339670012314 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 339670012315 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 339670012316 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012318 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670012319 dimerization interface [polypeptide binding]; other site 339670012320 putative transporter; Provisional; Region: PRK10504 339670012321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012322 putative substrate translocation pore; other site 339670012323 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012324 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 339670012325 Probable transposase; Region: OrfB_IS605; pfam01385 339670012326 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670012327 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670012328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 339670012329 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 339670012330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670012331 Coenzyme A binding pocket [chemical binding]; other site 339670012332 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 339670012333 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 339670012334 dimer interface [polypeptide binding]; other site 339670012335 RNA polymerase sigma factor; Reviewed; Region: PRK05602 339670012336 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670012337 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670012338 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 339670012339 active site 339670012340 metal binding site [ion binding]; metal-binding site 339670012341 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670012342 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012344 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670012345 dimerization interface [polypeptide binding]; other site 339670012346 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670012347 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 339670012348 dimerization interface [polypeptide binding]; other site 339670012349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670012350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670012351 metal binding site [ion binding]; metal-binding site 339670012352 active site 339670012353 I-site; other site 339670012354 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 339670012355 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 339670012356 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670012357 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670012358 DNA-binding site [nucleotide binding]; DNA binding site 339670012359 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670012360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670012361 homodimer interface [polypeptide binding]; other site 339670012362 catalytic residue [active] 339670012363 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 339670012364 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 339670012365 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 339670012366 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 339670012367 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 339670012368 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670012369 Predicted integral membrane protein [Function unknown]; Region: COG0392 339670012370 Uncharacterized conserved protein [Function unknown]; Region: COG2898 339670012371 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 339670012372 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 339670012373 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 339670012374 [4Fe-4S] binding site [ion binding]; other site 339670012375 molybdopterin cofactor binding site; other site 339670012376 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 339670012377 molybdopterin cofactor binding site; other site 339670012378 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 339670012379 Flavodoxin; Region: Flavodoxin_1; pfam00258 339670012380 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 339670012381 FAD binding pocket [chemical binding]; other site 339670012382 FAD binding motif [chemical binding]; other site 339670012383 catalytic residues [active] 339670012384 NAD binding pocket [chemical binding]; other site 339670012385 phosphate binding motif [ion binding]; other site 339670012386 beta-alpha-beta structure motif; other site 339670012387 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 339670012388 nitrite reductase subunit NirD; Provisional; Region: PRK14989 339670012389 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670012390 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670012391 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 339670012392 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 339670012393 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 339670012394 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012395 putative substrate translocation pore; other site 339670012396 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 339670012397 active site 339670012398 SAM binding site [chemical binding]; other site 339670012399 homodimer interface [polypeptide binding]; other site 339670012400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670012401 active site 339670012402 phosphorylation site [posttranslational modification] 339670012403 intermolecular recognition site; other site 339670012404 dimerization interface [polypeptide binding]; other site 339670012405 ANTAR domain; Region: ANTAR; pfam03861 339670012406 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 339670012407 NMT1-like family; Region: NMT1_2; pfam13379 339670012408 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 339670012409 putative uracil binding site [chemical binding]; other site 339670012410 putative active site [active] 339670012411 Flagellin N-methylase; Region: FliB; pfam03692 339670012412 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670012413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670012414 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 339670012415 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 339670012416 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012417 putative substrate translocation pore; other site 339670012418 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 339670012419 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 339670012420 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 339670012421 protein binding site [polypeptide binding]; other site 339670012422 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 339670012423 protein binding site [polypeptide binding]; other site 339670012424 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 339670012425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012426 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 339670012427 putative dimerization interface [polypeptide binding]; other site 339670012428 putative substrate binding pocket [chemical binding]; other site 339670012429 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012430 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670012431 putative substrate translocation pore; other site 339670012432 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670012433 DNA-binding site [nucleotide binding]; DNA binding site 339670012434 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670012435 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670012436 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670012437 homodimer interface [polypeptide binding]; other site 339670012438 catalytic residue [active] 339670012439 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 339670012440 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670012441 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670012442 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 339670012443 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 339670012444 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 339670012445 putative NAD(P) binding site [chemical binding]; other site 339670012446 catalytic Zn binding site [ion binding]; other site 339670012447 CAAX protease self-immunity; Region: Abi; cl00558 339670012448 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670012449 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670012450 active site 339670012451 catalytic tetrad [active] 339670012452 MarC family integral membrane protein; Region: MarC; cl00919 339670012453 enoyl-CoA hydratase; Provisional; Region: PRK05995 339670012454 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670012455 substrate binding site [chemical binding]; other site 339670012456 oxyanion hole (OAH) forming residues; other site 339670012457 trimer interface [polypeptide binding]; other site 339670012458 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 339670012459 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 339670012460 active site 339670012461 AMP binding site [chemical binding]; other site 339670012462 homodimer interface [polypeptide binding]; other site 339670012463 acyl-activating enzyme (AAE) consensus motif; other site 339670012464 CoA binding site [chemical binding]; other site 339670012465 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 339670012466 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 339670012467 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670012468 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670012469 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 339670012470 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 339670012471 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012472 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670012473 dimerization interface [polypeptide binding]; other site 339670012474 D-galactonate transporter; Region: 2A0114; TIGR00893 339670012475 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012477 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670012478 putative effector binding pocket; other site 339670012479 dimerization interface [polypeptide binding]; other site 339670012480 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 339670012481 HPP family; Region: HPP; pfam04982 339670012482 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 339670012483 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670012484 MarR family; Region: MarR_2; pfam12802 339670012485 MarR family; Region: MarR_2; cl17246 339670012486 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 339670012487 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 339670012488 Cl- selectivity filter; other site 339670012489 Cl- binding residues [ion binding]; other site 339670012490 pore gating glutamate residue; other site 339670012491 dimer interface [polypeptide binding]; other site 339670012492 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 339670012493 FOG: CBS domain [General function prediction only]; Region: COG0517 339670012494 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 339670012495 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 339670012496 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 339670012497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012498 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670012499 dimerization interface [polypeptide binding]; other site 339670012500 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 339670012501 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 339670012502 metal binding site [ion binding]; metal-binding site 339670012503 putative dimer interface [polypeptide binding]; other site 339670012504 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670012505 Uncharacterized conserved protein [Function unknown]; Region: COG4933 339670012506 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 339670012507 ATP binding site [chemical binding]; other site 339670012508 putative Mg++ binding site [ion binding]; other site 339670012509 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 339670012510 nucleotide binding region [chemical binding]; other site 339670012511 ATP-binding site [chemical binding]; other site 339670012512 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670012513 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670012514 trimer interface [polypeptide binding]; other site 339670012515 eyelet of channel; other site 339670012516 Predicted membrane protein [Function unknown]; Region: COG2259 339670012517 Cytochrome c; Region: Cytochrom_C; pfam00034 339670012518 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670012519 Cytochrome c; Region: Cytochrom_C; pfam00034 339670012520 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670012521 Cytochrome c; Region: Cytochrom_C; pfam00034 339670012522 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 339670012523 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670012524 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 339670012525 Bacterial Ig-like domain; Region: Big_5; pfam13205 339670012526 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 339670012527 MG2 domain; Region: A2M_N; pfam01835 339670012528 Alpha-2-macroglobulin family; Region: A2M; pfam00207 339670012529 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 339670012530 Transglycosylase; Region: Transgly; pfam00912 339670012531 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 339670012532 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 339670012533 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 339670012534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012535 putative substrate translocation pore; other site 339670012536 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 339670012537 Transcriptional regulators [Transcription]; Region: GntR; COG1802 339670012538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670012539 DNA-binding site [nucleotide binding]; DNA binding site 339670012540 FCD domain; Region: FCD; pfam07729 339670012541 Ectoine synthase; Region: Ectoine_synth; pfam06339 339670012542 amidase; Provisional; Region: PRK07056 339670012543 Amidase; Region: Amidase; cl11426 339670012544 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670012545 dimer interface [polypeptide binding]; other site 339670012546 conserved gate region; other site 339670012547 putative PBP binding loops; other site 339670012548 ABC-ATPase subunit interface; other site 339670012549 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 339670012550 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670012551 Walker A/P-loop; other site 339670012552 ATP binding site [chemical binding]; other site 339670012553 Q-loop/lid; other site 339670012554 ABC transporter signature motif; other site 339670012555 Walker B; other site 339670012556 D-loop; other site 339670012557 H-loop/switch region; other site 339670012558 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670012559 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670012560 substrate binding pocket [chemical binding]; other site 339670012561 membrane-bound complex binding site; other site 339670012562 hinge residues; other site 339670012563 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 339670012564 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670012565 substrate binding pocket [chemical binding]; other site 339670012566 membrane-bound complex binding site; other site 339670012567 hinge residues; other site 339670012568 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 339670012569 active site 339670012570 catalytic triad [active] 339670012571 magnesium-transporting ATPase; Provisional; Region: PRK15122 339670012572 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 339670012573 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 339670012574 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 339670012575 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 339670012576 Soluble P-type ATPase [General function prediction only]; Region: COG4087 339670012577 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 339670012578 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 339670012579 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 339670012580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012581 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 339670012582 dimerization interface [polypeptide binding]; other site 339670012583 substrate binding pocket [chemical binding]; other site 339670012584 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 339670012585 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 339670012586 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670012587 MarR family; Region: MarR; pfam01047 339670012588 Isochorismatase family; Region: Isochorismatase; pfam00857 339670012589 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 339670012590 catalytic triad [active] 339670012591 conserved cis-peptide bond; other site 339670012592 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012593 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670012594 putative substrate translocation pore; other site 339670012595 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012596 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 339670012597 Mechanosensitive ion channel; Region: MS_channel; pfam00924 339670012598 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670012599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670012600 DNA-binding site [nucleotide binding]; DNA binding site 339670012601 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670012602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670012603 homodimer interface [polypeptide binding]; other site 339670012604 catalytic residue [active] 339670012605 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 339670012606 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 339670012607 putative molybdopterin cofactor binding site [chemical binding]; other site 339670012608 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 339670012609 putative molybdopterin cofactor binding site; other site 339670012610 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 339670012611 Fusaric acid resistance protein family; Region: FUSC; pfam04632 339670012612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012614 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670012615 putative effector binding pocket; other site 339670012616 dimerization interface [polypeptide binding]; other site 339670012617 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670012618 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012619 putative substrate translocation pore; other site 339670012620 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012621 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 339670012622 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 339670012623 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 339670012624 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 339670012625 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 339670012626 Cupin; Region: Cupin_1; smart00835 339670012627 Cupin; Region: Cupin_1; smart00835 339670012628 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 339670012629 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 339670012630 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 339670012631 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 339670012632 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 339670012633 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 339670012634 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 339670012635 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670012636 dimer interface [polypeptide binding]; other site 339670012637 conserved gate region; other site 339670012638 putative PBP binding loops; other site 339670012639 ABC-ATPase subunit interface; other site 339670012640 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 339670012641 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670012642 dimer interface [polypeptide binding]; other site 339670012643 conserved gate region; other site 339670012644 putative PBP binding loops; other site 339670012645 ABC-ATPase subunit interface; other site 339670012646 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 339670012647 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670012648 Walker A/P-loop; other site 339670012649 ATP binding site [chemical binding]; other site 339670012650 Q-loop/lid; other site 339670012651 ABC transporter signature motif; other site 339670012652 Walker B; other site 339670012653 D-loop; other site 339670012654 H-loop/switch region; other site 339670012655 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 339670012656 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670012657 Walker A/P-loop; other site 339670012658 ATP binding site [chemical binding]; other site 339670012659 Q-loop/lid; other site 339670012660 ABC transporter signature motif; other site 339670012661 Walker B; other site 339670012662 D-loop; other site 339670012663 H-loop/switch region; other site 339670012664 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 339670012665 putative chaperone protein EcpD; Provisional; Region: PRK09926 339670012666 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 339670012667 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 339670012668 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 339670012669 PapC N-terminal domain; Region: PapC_N; pfam13954 339670012670 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 339670012671 PapC C-terminal domain; Region: PapC_C; pfam13953 339670012672 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 339670012673 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 339670012674 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670012675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012676 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670012677 substrate binding pocket [chemical binding]; other site 339670012678 dimerization interface [polypeptide binding]; other site 339670012679 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 339670012680 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 339670012681 Peptidase family M23; Region: Peptidase_M23; pfam01551 339670012682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012684 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 339670012685 putative dimerization interface [polypeptide binding]; other site 339670012686 Predicted ester cyclase [General function prediction only]; Region: COG5485 339670012687 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670012688 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670012689 active site 339670012690 catalytic tetrad [active] 339670012691 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012693 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 339670012694 putative effector binding pocket; other site 339670012695 putative dimerization interface [polypeptide binding]; other site 339670012696 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670012697 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670012698 trimer interface [polypeptide binding]; other site 339670012699 eyelet of channel; other site 339670012700 OpgC protein; Region: OpgC_C; pfam10129 339670012701 S-formylglutathione hydrolase; Region: PLN02442 339670012702 Putative esterase; Region: Esterase; pfam00756 339670012703 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670012704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012706 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 339670012707 substrate binding pocket [chemical binding]; other site 339670012708 dimerization interface [polypeptide binding]; other site 339670012709 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 339670012710 classical (c) SDRs; Region: SDR_c; cd05233 339670012711 NAD(P) binding site [chemical binding]; other site 339670012712 active site 339670012713 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670012714 MarR family; Region: MarR_2; pfam12802 339670012715 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 339670012716 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670012717 Coenzyme A binding pocket [chemical binding]; other site 339670012718 Cupin domain; Region: Cupin_2; cl17218 339670012719 Cache domain; Region: Cache_1; pfam02743 339670012720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670012721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670012722 metal binding site [ion binding]; metal-binding site 339670012723 active site 339670012724 I-site; other site 339670012725 Ion channel; Region: Ion_trans_2; pfam07885 339670012726 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 339670012727 TrkA-N domain; Region: TrkA_N; pfam02254 339670012728 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670012729 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 339670012730 BetR domain; Region: BetR; pfam08667 339670012731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670012732 active site 339670012733 phosphorylation site [posttranslational modification] 339670012734 intermolecular recognition site; other site 339670012735 dimerization interface [polypeptide binding]; other site 339670012736 Part of AAA domain; Region: AAA_19; pfam13245 339670012737 Family description; Region: UvrD_C_2; pfam13538 339670012738 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 339670012739 dimer interface [polypeptide binding]; other site 339670012740 ligand binding site [chemical binding]; other site 339670012741 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670012742 dimerization interface [polypeptide binding]; other site 339670012743 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670012744 dimer interface [polypeptide binding]; other site 339670012745 putative CheW interface [polypeptide binding]; other site 339670012746 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670012747 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012748 putative substrate translocation pore; other site 339670012749 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012750 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 339670012751 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 339670012752 NADP binding site [chemical binding]; other site 339670012753 dimer interface [polypeptide binding]; other site 339670012754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012756 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670012757 dimerization interface [polypeptide binding]; other site 339670012758 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 339670012759 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 339670012760 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 339670012761 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 339670012762 DNA binding residues [nucleotide binding] 339670012763 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 339670012764 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670012765 substrate binding pocket [chemical binding]; other site 339670012766 membrane-bound complex binding site; other site 339670012767 hinge residues; other site 339670012768 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012770 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 339670012771 putative effector binding pocket; other site 339670012772 putative dimerization interface [polypeptide binding]; other site 339670012773 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 339670012774 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670012775 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 339670012776 DNA-binding site [nucleotide binding]; DNA binding site 339670012777 RNA-binding motif; other site 339670012778 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 339670012779 oligomer interface [polypeptide binding]; other site 339670012780 putative active site [active] 339670012781 Mn binding site [ion binding]; other site 339670012782 YhhN-like protein; Region: YhhN; pfam07947 339670012783 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 339670012784 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 339670012785 short chain dehydrogenase; Provisional; Region: PRK07832 339670012786 classical (c) SDRs; Region: SDR_c; cd05233 339670012787 NAD(P) binding site [chemical binding]; other site 339670012788 active site 339670012789 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 339670012790 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 339670012791 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670012792 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670012793 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 339670012794 Urea transporter; Region: UT; cl01829 339670012795 aldolase II superfamily protein; Provisional; Region: PRK07044 339670012796 intersubunit interface [polypeptide binding]; other site 339670012797 active site 339670012798 Zn2+ binding site [ion binding]; other site 339670012799 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 339670012800 active site 1 [active] 339670012801 dimer interface [polypeptide binding]; other site 339670012802 hexamer interface [polypeptide binding]; other site 339670012803 active site 2 [active] 339670012804 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 339670012805 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 339670012806 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 339670012807 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 339670012808 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 339670012809 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 339670012810 amidase; Provisional; Region: PRK07486 339670012811 Amidase; Region: Amidase; pfam01425 339670012812 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670012813 Ligand Binding Site [chemical binding]; other site 339670012814 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 339670012815 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 339670012816 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 339670012817 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 339670012818 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 339670012819 trimer interface [polypeptide binding]; other site 339670012820 putative Zn binding site [ion binding]; other site 339670012821 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 339670012822 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670012823 catalytic loop [active] 339670012824 iron binding site [ion binding]; other site 339670012825 Methane monooxygenase (MMO) reductase of methanotrophs catalyzes the NADH-dependent hydroxylation of methane to methanol. This multicomponent enzyme mediates electron transfer via a hydroxylase (MMOH), a coupling protein, and a reductase which is...; Region: MMO_FAD_NAD_binding; cd06210 339670012826 FAD binding pocket [chemical binding]; other site 339670012827 FAD binding motif [chemical binding]; other site 339670012828 phosphate binding motif [ion binding]; other site 339670012829 beta-alpha-beta structure motif; other site 339670012830 NAD binding pocket [chemical binding]; other site 339670012831 hybrid cluster protein; Provisional; Region: PRK05290 339670012832 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 339670012833 ACS interaction site; other site 339670012834 CODH interaction site; other site 339670012835 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 339670012836 hybrid metal cluster; other site 339670012837 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 339670012838 benzoate transport; Region: 2A0115; TIGR00895 339670012839 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012840 putative substrate translocation pore; other site 339670012841 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012842 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 339670012843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670012844 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 339670012845 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 339670012846 active site 339670012847 metal binding site [ion binding]; metal-binding site 339670012848 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 339670012849 putative active site [active] 339670012850 putative metal binding site [ion binding]; other site 339670012851 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670012852 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 339670012853 NAD(P) binding site [chemical binding]; other site 339670012854 catalytic residues [active] 339670012855 L-aspartate dehydrogenase; Provisional; Region: PRK13303 339670012856 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 339670012857 Domain of unknown function DUF108; Region: DUF108; pfam01958 339670012858 hypothetical protein; Provisional; Region: PRK07064 339670012859 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 339670012860 PYR/PP interface [polypeptide binding]; other site 339670012861 dimer interface [polypeptide binding]; other site 339670012862 TPP binding site [chemical binding]; other site 339670012863 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 339670012864 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 339670012865 TPP-binding site [chemical binding]; other site 339670012866 short chain dehydrogenase; Provisional; Region: PRK07062 339670012867 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 339670012868 putative NAD(P) binding site [chemical binding]; other site 339670012869 putative active site [active] 339670012870 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670012871 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670012872 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670012873 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670012874 Serine hydrolase; Region: Ser_hydrolase; cl17834 339670012875 Cupin domain; Region: Cupin_2; pfam07883 339670012876 short chain dehydrogenase; Provisional; Region: PRK12939 339670012877 classical (c) SDRs; Region: SDR_c; cd05233 339670012878 NAD(P) binding site [chemical binding]; other site 339670012879 active site 339670012880 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670012881 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 339670012882 [2Fe-2S] cluster binding site [ion binding]; other site 339670012883 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 339670012884 hydrophobic ligand binding site; other site 339670012885 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 339670012886 [2Fe-2S] cluster binding site [ion binding]; other site 339670012887 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670012888 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670012889 trimer interface [polypeptide binding]; other site 339670012890 eyelet of channel; other site 339670012891 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670012892 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670012893 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670012894 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 339670012895 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 339670012896 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 339670012897 putative active site [active] 339670012898 putative metal binding site [ion binding]; other site 339670012899 multidrug resistance protein MdtN; Provisional; Region: PRK10476 339670012900 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670012901 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670012902 Fusaric acid resistance protein family; Region: FUSC; pfam04632 339670012903 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 339670012904 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 339670012905 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 339670012906 MgtC family; Region: MgtC; pfam02308 339670012907 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 339670012908 Autoinducer binding domain; Region: Autoind_bind; pfam03472 339670012909 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670012910 DNA binding residues [nucleotide binding] 339670012911 dimerization interface [polypeptide binding]; other site 339670012912 Autoinducer synthetase; Region: Autoind_synth; cl17404 339670012913 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 339670012914 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 339670012915 dimerization interface [polypeptide binding]; other site 339670012916 active site 339670012917 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 339670012918 FOG: CBS domain [General function prediction only]; Region: COG0517 339670012919 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670012920 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 339670012921 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 339670012922 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670012923 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670012924 trimer interface [polypeptide binding]; other site 339670012925 eyelet of channel; other site 339670012926 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670012927 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 339670012928 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 339670012929 DNA binding residues [nucleotide binding] 339670012930 dimer interface [polypeptide binding]; other site 339670012931 [2Fe-2S] cluster binding site [ion binding]; other site 339670012932 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 339670012933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670012934 NAD(P) binding site [chemical binding]; other site 339670012935 active site 339670012936 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012937 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012938 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 339670012939 dimerization interface [polypeptide binding]; other site 339670012940 substrate binding pocket [chemical binding]; other site 339670012941 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 339670012942 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670012943 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 339670012944 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670012945 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 339670012946 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670012947 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 339670012948 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 339670012949 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 339670012950 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 339670012951 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 339670012952 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 339670012953 putative active site [active] 339670012954 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 339670012955 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 339670012956 Walker A/P-loop; other site 339670012957 ATP binding site [chemical binding]; other site 339670012958 Q-loop/lid; other site 339670012959 ABC transporter signature motif; other site 339670012960 Walker B; other site 339670012961 D-loop; other site 339670012962 H-loop/switch region; other site 339670012963 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 339670012964 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 339670012965 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670012966 dimer interface [polypeptide binding]; other site 339670012967 conserved gate region; other site 339670012968 putative PBP binding loops; other site 339670012969 ABC-ATPase subunit interface; other site 339670012970 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670012971 putative PBP binding loops; other site 339670012972 dimer interface [polypeptide binding]; other site 339670012973 ABC-ATPase subunit interface; other site 339670012974 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 339670012975 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 339670012976 active site 339670012977 metal binding site [ion binding]; metal-binding site 339670012978 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 339670012979 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 339670012980 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 339670012981 nucleophile elbow; other site 339670012982 Patatin phospholipase; Region: DUF3734; pfam12536 339670012983 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 339670012984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670012985 NAD(P) binding site [chemical binding]; other site 339670012986 active site 339670012987 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670012988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012989 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670012990 dimerization interface [polypeptide binding]; other site 339670012991 substrate binding pocket [chemical binding]; other site 339670012992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670012993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670012994 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 339670012995 dimerization interface [polypeptide binding]; other site 339670012996 substrate binding pocket [chemical binding]; other site 339670012997 benzoate transport; Region: 2A0115; TIGR00895 339670012998 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670012999 putative substrate translocation pore; other site 339670013000 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 339670013001 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 339670013002 active site 339670013003 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670013004 dimerization interface [polypeptide binding]; other site 339670013005 putative DNA binding site [nucleotide binding]; other site 339670013006 putative Zn2+ binding site [ion binding]; other site 339670013007 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670013008 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 339670013009 FMN binding site [chemical binding]; other site 339670013010 active site 339670013011 substrate binding site [chemical binding]; other site 339670013012 catalytic residue [active] 339670013013 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670013014 Coenzyme A binding pocket [chemical binding]; other site 339670013015 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670013016 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 339670013017 active site 339670013018 catalytic site [active] 339670013019 putative metal binding site [ion binding]; other site 339670013020 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670013021 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670013022 DNA binding site [nucleotide binding] 339670013023 domain linker motif; other site 339670013024 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 339670013025 putative dimerization interface [polypeptide binding]; other site 339670013026 putative ligand binding site [chemical binding]; other site 339670013027 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 339670013028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670013029 dimer interface [polypeptide binding]; other site 339670013030 conserved gate region; other site 339670013031 putative PBP binding loops; other site 339670013032 ABC-ATPase subunit interface; other site 339670013033 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 339670013034 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670013035 dimer interface [polypeptide binding]; other site 339670013036 conserved gate region; other site 339670013037 putative PBP binding loops; other site 339670013038 ABC-ATPase subunit interface; other site 339670013039 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 339670013040 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 339670013041 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670013042 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670013043 trimer interface [polypeptide binding]; other site 339670013044 eyelet of channel; other site 339670013045 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670013046 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013047 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 339670013048 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 339670013049 hypothetical protein; Provisional; Region: PRK07481 339670013050 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670013051 inhibitor-cofactor binding pocket; inhibition site 339670013052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670013053 catalytic residue [active] 339670013054 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 339670013055 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670013056 NAD(P) binding site [chemical binding]; other site 339670013057 catalytic residues [active] 339670013058 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670013059 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670013060 DNA binding residues [nucleotide binding] 339670013061 dimerization interface [polypeptide binding]; other site 339670013062 Predicted metalloprotease [General function prediction only]; Region: COG2321 339670013063 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 339670013064 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 339670013065 classical (c) SDRs; Region: SDR_c; cd05233 339670013066 NAD(P) binding site [chemical binding]; other site 339670013067 active site 339670013068 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670013069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013070 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670013071 dimerization interface [polypeptide binding]; other site 339670013072 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670013073 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670013074 putative substrate translocation pore; other site 339670013075 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 339670013076 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 339670013077 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670013078 putative NAD(P) binding site [chemical binding]; other site 339670013079 putative active site [active] 339670013080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670013081 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013082 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670013083 dimerization interface [polypeptide binding]; other site 339670013084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670013085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013086 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670013087 dimerization interface [polypeptide binding]; other site 339670013088 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670013089 putative substrate translocation pore; other site 339670013090 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 339670013091 homotrimer interaction site [polypeptide binding]; other site 339670013092 putative active site [active] 339670013093 short chain dehydrogenase; Provisional; Region: PRK12828 339670013094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670013095 NAD(P) binding site [chemical binding]; other site 339670013096 active site 339670013097 dihydrodipicolinate reductase; Region: dapB_plant; TIGR02130 339670013098 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 339670013099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670013100 NAD(P) binding site [chemical binding]; other site 339670013101 active site 339670013102 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 339670013103 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670013104 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670013105 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 339670013106 EamA-like transporter family; Region: EamA; pfam00892 339670013107 EamA-like transporter family; Region: EamA; pfam00892 339670013108 Predicted small secreted protein [Function unknown]; Region: COG5510 339670013109 aspartate carbamoyltransferase; Provisional; Region: PRK11891 339670013110 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 339670013111 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 339670013112 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 339670013113 oligomeric interface; other site 339670013114 putative active site [active] 339670013115 homodimer interface [polypeptide binding]; other site 339670013116 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 339670013117 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 339670013118 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670013119 N-terminal plug; other site 339670013120 ligand-binding site [chemical binding]; other site 339670013121 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 339670013122 Sel1-like repeats; Region: SEL1; smart00671 339670013123 Sel1 repeat; Region: Sel1; cl02723 339670013124 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 339670013125 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 339670013126 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 339670013127 putative active site [active] 339670013128 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 339670013129 metal-binding site 339670013130 short chain dehydrogenase; Provisional; Region: PRK07060 339670013131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670013132 NAD(P) binding site [chemical binding]; other site 339670013133 active site 339670013134 L-fuculokinase; Region: fuculo_kin_coli; TIGR02628 339670013135 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 339670013136 N- and C-terminal domain interface [polypeptide binding]; other site 339670013137 putative active site [active] 339670013138 MgATP binding site [chemical binding]; other site 339670013139 catalytic site [active] 339670013140 metal binding site [ion binding]; metal-binding site 339670013141 putative xylulose binding site [chemical binding]; other site 339670013142 putative homodimer interface [polypeptide binding]; other site 339670013143 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 339670013144 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 339670013145 putative NAD(P) binding site [chemical binding]; other site 339670013146 catalytic Zn binding site [ion binding]; other site 339670013147 structural Zn binding site [ion binding]; other site 339670013148 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670013149 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670013150 TM-ABC transporter signature motif; other site 339670013151 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 339670013152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670013153 Walker A/P-loop; other site 339670013154 ATP binding site [chemical binding]; other site 339670013155 Q-loop/lid; other site 339670013156 ABC transporter signature motif; other site 339670013157 Walker B; other site 339670013158 D-loop; other site 339670013159 H-loop/switch region; other site 339670013160 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670013161 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 339670013162 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 339670013163 putative ligand binding site [chemical binding]; other site 339670013164 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670013165 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670013166 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013167 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 339670013168 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 339670013169 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 339670013170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 339670013171 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 339670013172 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 339670013173 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670013174 dimer interface [polypeptide binding]; other site 339670013175 putative CheW interface [polypeptide binding]; other site 339670013176 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670013177 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 339670013178 active site 339670013179 phosphorylation site [posttranslational modification] 339670013180 intermolecular recognition site; other site 339670013181 dimerization interface [polypeptide binding]; other site 339670013182 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670013183 DNA binding residues [nucleotide binding] 339670013184 dimerization interface [polypeptide binding]; other site 339670013185 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 339670013186 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670013187 Walker A motif; other site 339670013188 ATP binding site [chemical binding]; other site 339670013189 Walker B motif; other site 339670013190 arginine finger; other site 339670013191 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 339670013192 DNA-binding interface [nucleotide binding]; DNA binding site 339670013193 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 339670013194 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670013195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013196 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 339670013197 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670013198 catalytic loop [active] 339670013199 iron binding site [ion binding]; other site 339670013200 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670013201 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 339670013202 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670013203 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 339670013204 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670013205 Fic family protein [Function unknown]; Region: COG3177 339670013206 Fic/DOC family; Region: Fic; pfam02661 339670013207 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670013208 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670013209 DNA binding site [nucleotide binding] 339670013210 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 339670013211 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 339670013212 type III secretion system protein YscR; Provisional; Region: PRK12797 339670013213 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670013214 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670013215 catalytic residue [active] 339670013216 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 339670013217 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 339670013218 active site 339670013219 dimer interface [polypeptide binding]; other site 339670013220 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 339670013221 Ligand Binding Site [chemical binding]; other site 339670013222 Molecular Tunnel; other site 339670013223 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 339670013224 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 339670013225 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 339670013226 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 339670013227 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 339670013228 Walker A motif/ATP binding site; other site 339670013229 Walker B motif; other site 339670013230 type III secretion system protein; Reviewed; Region: PRK06937 339670013231 Flagellar assembly protein FliH; Region: FliH; pfam02108 339670013232 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 339670013233 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 339670013234 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 339670013235 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 339670013236 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 339670013237 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 339670013238 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 339670013239 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 339670013240 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 339670013241 FHIPEP family; Region: FHIPEP; pfam00771 339670013242 Autoinducer binding domain; Region: Autoind_bind; pfam03472 339670013243 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 339670013244 DNA binding residues [nucleotide binding] 339670013245 Autoinducer binding domain; Region: Autoind_bind; pfam03472 339670013246 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670013247 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670013248 DNA binding residues [nucleotide binding] 339670013249 dimerization interface [polypeptide binding]; other site 339670013250 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 339670013251 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 339670013252 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 339670013253 Trehalase; Region: Trehalase; cl17346 339670013254 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 339670013255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670013256 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670013257 putative substrate translocation pore; other site 339670013258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 339670013259 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 339670013260 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 339670013261 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 339670013262 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670013263 Coenzyme A binding pocket [chemical binding]; other site 339670013264 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 339670013265 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 339670013266 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 339670013267 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670013268 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 339670013269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013270 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670013271 dimerization interface [polypeptide binding]; other site 339670013272 diaminopimelate decarboxylase; Provisional; Region: PRK11165 339670013273 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 339670013274 active site 339670013275 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 339670013276 substrate binding site [chemical binding]; other site 339670013277 catalytic residues [active] 339670013278 dimer interface [polypeptide binding]; other site 339670013279 Probable transposase; Region: OrfB_IS605; pfam01385 339670013280 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670013281 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670013282 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670013283 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670013284 substrate binding pocket [chemical binding]; other site 339670013285 membrane-bound complex binding site; other site 339670013286 hinge residues; other site 339670013287 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670013288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670013289 dimer interface [polypeptide binding]; other site 339670013290 conserved gate region; other site 339670013291 putative PBP binding loops; other site 339670013292 ABC-ATPase subunit interface; other site 339670013293 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 339670013294 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670013295 Walker A/P-loop; other site 339670013296 ATP binding site [chemical binding]; other site 339670013297 Q-loop/lid; other site 339670013298 ABC transporter signature motif; other site 339670013299 Walker B; other site 339670013300 D-loop; other site 339670013301 H-loop/switch region; other site 339670013302 cystathionine beta-lyase; Provisional; Region: PRK09028 339670013303 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 339670013304 homodimer interface [polypeptide binding]; other site 339670013305 substrate-cofactor binding pocket; other site 339670013306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670013307 catalytic residue [active] 339670013308 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 339670013309 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670013310 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670013311 DNA binding residues [nucleotide binding] 339670013312 dimerization interface [polypeptide binding]; other site 339670013313 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 339670013314 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 339670013315 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 339670013316 catalytic residues [active] 339670013317 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 339670013318 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 339670013319 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670013320 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670013321 DNA-binding site [nucleotide binding]; DNA binding site 339670013322 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670013323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670013324 homodimer interface [polypeptide binding]; other site 339670013325 catalytic residue [active] 339670013326 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 339670013327 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 339670013328 active site 339670013329 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 339670013330 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 339670013331 active site 339670013332 nucleotide binding site [chemical binding]; other site 339670013333 HIGH motif; other site 339670013334 KMSKS motif; other site 339670013335 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 339670013336 nudix motif; other site 339670013337 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 339670013338 hydrophobic ligand binding site; other site 339670013339 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 339670013340 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 339670013341 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 339670013342 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 339670013343 Short C-terminal domain; Region: SHOCT; pfam09851 339670013344 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 339670013345 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 339670013346 spermidine synthase; Provisional; Region: PRK03612 339670013347 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670013348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670013349 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 339670013350 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 339670013351 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 339670013352 active site 339670013353 metal binding site [ion binding]; metal-binding site 339670013354 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 339670013355 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 339670013356 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670013357 Coenzyme A binding pocket [chemical binding]; other site 339670013358 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 339670013359 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 339670013360 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 339670013361 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670013362 non-specific DNA binding site [nucleotide binding]; other site 339670013363 salt bridge; other site 339670013364 sequence-specific DNA binding site [nucleotide binding]; other site 339670013365 Cupin domain; Region: Cupin_2; pfam07883 339670013366 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670013367 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670013368 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670013369 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 339670013370 AsnC family; Region: AsnC_trans_reg; pfam01037 339670013371 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 339670013372 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 339670013373 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 339670013374 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 339670013375 homodimer interface [polypeptide binding]; other site 339670013376 substrate-cofactor binding pocket; other site 339670013377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670013378 catalytic residue [active] 339670013379 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670013380 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670013381 dimer interface [polypeptide binding]; other site 339670013382 conserved gate region; other site 339670013383 putative PBP binding loops; other site 339670013384 ABC-ATPase subunit interface; other site 339670013385 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670013386 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670013387 dimer interface [polypeptide binding]; other site 339670013388 conserved gate region; other site 339670013389 putative PBP binding loops; other site 339670013390 ABC-ATPase subunit interface; other site 339670013391 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 339670013392 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670013393 substrate binding pocket [chemical binding]; other site 339670013394 membrane-bound complex binding site; other site 339670013395 hinge residues; other site 339670013396 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 339670013397 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670013398 Walker A/P-loop; other site 339670013399 ATP binding site [chemical binding]; other site 339670013400 Q-loop/lid; other site 339670013401 ABC transporter signature motif; other site 339670013402 Walker B; other site 339670013403 D-loop; other site 339670013404 H-loop/switch region; other site 339670013405 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 339670013406 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670013407 NAD(P) binding site [chemical binding]; other site 339670013408 catalytic residues [active] 339670013409 homoserine dehydrogenase; Provisional; Region: PRK06270 339670013410 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 339670013411 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670013412 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670013413 putative DNA binding site [nucleotide binding]; other site 339670013414 putative Zn2+ binding site [ion binding]; other site 339670013415 AsnC family; Region: AsnC_trans_reg; pfam01037 339670013416 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 339670013417 choline dehydrogenase; Validated; Region: PRK02106 339670013418 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670013419 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670013420 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670013421 dimer interface [polypeptide binding]; other site 339670013422 conserved gate region; other site 339670013423 putative PBP binding loops; other site 339670013424 ABC-ATPase subunit interface; other site 339670013425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670013426 dimer interface [polypeptide binding]; other site 339670013427 conserved gate region; other site 339670013428 putative PBP binding loops; other site 339670013429 ABC-ATPase subunit interface; other site 339670013430 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 339670013431 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 339670013432 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 339670013433 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 339670013434 Walker A/P-loop; other site 339670013435 ATP binding site [chemical binding]; other site 339670013436 Q-loop/lid; other site 339670013437 ABC transporter signature motif; other site 339670013438 Walker B; other site 339670013439 D-loop; other site 339670013440 H-loop/switch region; other site 339670013441 TOBE domain; Region: TOBE_2; pfam08402 339670013442 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670013443 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670013444 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670013445 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670013446 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670013447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013448 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670013449 dimerization interface [polypeptide binding]; other site 339670013450 substrate binding pocket [chemical binding]; other site 339670013451 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 339670013452 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 339670013453 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 339670013454 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 339670013455 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 339670013456 benzoate transport; Region: 2A0115; TIGR00895 339670013457 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670013458 putative substrate translocation pore; other site 339670013459 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 339670013460 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670013461 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670013462 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 339670013463 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 339670013464 N-terminal, non-catalytic, domain of BphC5 (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Rhodococcus rhodochrous K37, and similar proteins; Region: BphC5-RrK37_N_like; cd08362 339670013465 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 339670013466 putative oligomer interface [polypeptide binding]; other site 339670013467 C-terminal, catalytic, domain of BphC5 (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacterium Rhodococcus rhodochrous K37 and similar proteins; Region: BphC5-RK37_C_like; cd07239 339670013468 putative active site [active] 339670013469 Mn binding site [ion binding]; other site 339670013470 putative oligomer interface [polypeptide binding]; other site 339670013471 Amidohydrolase; Region: Amidohydro_2; pfam04909 339670013472 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 339670013473 Transcriptional regulators [Transcription]; Region: GntR; COG1802 339670013474 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670013475 DNA-binding site [nucleotide binding]; DNA binding site 339670013476 FCD domain; Region: FCD; pfam07729 339670013477 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 339670013478 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 339670013479 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 339670013480 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 339670013481 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 339670013482 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 339670013483 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670013484 putative DNA binding site [nucleotide binding]; other site 339670013485 putative Zn2+ binding site [ion binding]; other site 339670013486 AsnC family; Region: AsnC_trans_reg; pfam01037 339670013487 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 339670013488 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 339670013489 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 339670013490 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 339670013491 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670013492 dimer interface [polypeptide binding]; other site 339670013493 conserved gate region; other site 339670013494 putative PBP binding loops; other site 339670013495 ABC-ATPase subunit interface; other site 339670013496 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 339670013497 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670013498 Walker A/P-loop; other site 339670013499 ATP binding site [chemical binding]; other site 339670013500 Q-loop/lid; other site 339670013501 ABC transporter signature motif; other site 339670013502 Walker B; other site 339670013503 D-loop; other site 339670013504 H-loop/switch region; other site 339670013505 NIPSNAP; Region: NIPSNAP; pfam07978 339670013506 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670013507 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 339670013508 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 339670013509 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 339670013510 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670013511 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 339670013512 NAD(P) binding site [chemical binding]; other site 339670013513 catalytic residues [active] 339670013514 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 339670013515 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 339670013516 nudix motif; other site 339670013517 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 339670013518 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 339670013519 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 339670013520 Amino acid synthesis; Region: AA_synth; pfam06684 339670013521 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 339670013522 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 339670013523 putative ligand binding site [chemical binding]; other site 339670013524 NAD binding site [chemical binding]; other site 339670013525 dimerization interface [polypeptide binding]; other site 339670013526 catalytic site [active] 339670013527 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670013528 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670013529 trimer interface [polypeptide binding]; other site 339670013530 eyelet of channel; other site 339670013531 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 339670013532 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 339670013533 FMN-binding pocket [chemical binding]; other site 339670013534 flavin binding motif; other site 339670013535 phosphate binding motif [ion binding]; other site 339670013536 beta-alpha-beta structure motif; other site 339670013537 NAD binding pocket [chemical binding]; other site 339670013538 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670013539 catalytic loop [active] 339670013540 iron binding site [ion binding]; other site 339670013541 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670013542 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 339670013543 iron-sulfur cluster [ion binding]; other site 339670013544 [2Fe-2S] cluster binding site [ion binding]; other site 339670013545 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 339670013546 alpha subunit interface [polypeptide binding]; other site 339670013547 active site 339670013548 substrate binding site [chemical binding]; other site 339670013549 Fe binding site [ion binding]; other site 339670013550 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 339670013551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013552 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670013553 dimerization interface [polypeptide binding]; other site 339670013554 TIGR03118 family protein; Region: PEPCTERM_chp_1 339670013555 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 339670013556 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 339670013557 Protein of unknown function, DUF488; Region: DUF488; pfam04343 339670013558 hypothetical protein; Provisional; Region: PRK10621 339670013559 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 339670013560 NnrU protein; Region: NnrU; pfam07298 339670013561 TfoX N-terminal domain; Region: TfoX_N; pfam04993 339670013562 putative dehydrogenase; Provisional; Region: PRK10098 339670013563 hypothetical protein; Provisional; Region: PRK07907 339670013564 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 339670013565 metal binding site [ion binding]; metal-binding site 339670013566 putative dimer interface [polypeptide binding]; other site 339670013567 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 339670013568 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 339670013569 FMN binding site [chemical binding]; other site 339670013570 substrate binding site [chemical binding]; other site 339670013571 putative catalytic residue [active] 339670013572 arginine:agmatin antiporter; Provisional; Region: PRK10644 339670013573 arginine decarboxylase; Provisional; Region: PRK15029 339670013574 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 339670013575 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670013576 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670013577 catalytic residue [active] 339670013578 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 339670013579 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 339670013580 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 339670013581 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 339670013582 conserved cys residue [active] 339670013583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013584 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 339670013585 active site residue [active] 339670013586 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 339670013587 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 339670013588 Cytochrome P450; Region: p450; cl12078 339670013589 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 339670013590 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 339670013591 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 339670013592 tetramer interface [polypeptide binding]; other site 339670013593 active site 339670013594 Mg2+/Mn2+ binding site [ion binding]; other site 339670013595 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 339670013596 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 339670013597 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 339670013598 putative active site [active] 339670013599 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 339670013600 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 339670013601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670013602 active site 339670013603 phosphorylation site [posttranslational modification] 339670013604 intermolecular recognition site; other site 339670013605 dimerization interface [polypeptide binding]; other site 339670013606 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670013607 DNA binding site [nucleotide binding] 339670013608 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 339670013609 HAMP domain; Region: HAMP; pfam00672 339670013610 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670013611 dimer interface [polypeptide binding]; other site 339670013612 phosphorylation site [posttranslational modification] 339670013613 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670013614 ATP binding site [chemical binding]; other site 339670013615 Mg2+ binding site [ion binding]; other site 339670013616 G-X-G motif; other site 339670013617 Transcriptional regulators [Transcription]; Region: MarR; COG1846 339670013618 MarR family; Region: MarR_2; pfam12802 339670013619 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 339670013620 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 339670013621 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670013622 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013623 The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold; Region: PBP2_BlaA; cd08487 339670013624 putative dimerization interface [polypeptide binding]; other site 339670013625 putative substrate binding pocket [chemical binding]; other site 339670013626 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 339670013627 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 339670013628 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 339670013629 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 339670013630 Autotransporter beta-domain; Region: Autotransporter; pfam03797 339670013631 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 339670013632 putative active site [active] 339670013633 rod shape-determining protein MreB; Provisional; Region: PRK13930 339670013634 MreB and similar proteins; Region: MreB_like; cd10225 339670013635 nucleotide binding site [chemical binding]; other site 339670013636 Mg binding site [ion binding]; other site 339670013637 putative protofilament interaction site [polypeptide binding]; other site 339670013638 RodZ interaction site [polypeptide binding]; other site 339670013639 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 339670013640 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 339670013641 active site 339670013642 nucleophile elbow; other site 339670013643 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 339670013644 Surface antigen; Region: Bac_surface_Ag; pfam01103 339670013645 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670013646 dimer interface [polypeptide binding]; other site 339670013647 phosphorylation site [posttranslational modification] 339670013648 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670013649 ATP binding site [chemical binding]; other site 339670013650 Mg2+ binding site [ion binding]; other site 339670013651 G-X-G motif; other site 339670013652 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 339670013653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670013654 active site 339670013655 phosphorylation site [posttranslational modification] 339670013656 intermolecular recognition site; other site 339670013657 dimerization interface [polypeptide binding]; other site 339670013658 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670013659 DNA binding site [nucleotide binding] 339670013660 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 339670013661 glutaminase; Provisional; Region: PRK00971 339670013662 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 339670013663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013664 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670013665 dimerization interface [polypeptide binding]; other site 339670013666 Isochorismatase family; Region: Isochorismatase; pfam00857 339670013667 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 339670013668 catalytic triad [active] 339670013669 conserved cis-peptide bond; other site 339670013670 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 339670013671 B1 nucleotide binding pocket [chemical binding]; other site 339670013672 B2 nucleotide binding pocket [chemical binding]; other site 339670013673 CAS motifs; other site 339670013674 active site 339670013675 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 339670013676 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670013677 non-specific DNA binding site [nucleotide binding]; other site 339670013678 salt bridge; other site 339670013679 sequence-specific DNA binding site [nucleotide binding]; other site 339670013680 HD domain; Region: HD_3; pfam13023 339670013681 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670013682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670013683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670013684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013685 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 339670013686 putative effector binding pocket; other site 339670013687 putative dimerization interface [polypeptide binding]; other site 339670013688 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 339670013689 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670013690 substrate binding site [chemical binding]; other site 339670013691 oxyanion hole (OAH) forming residues; other site 339670013692 trimer interface [polypeptide binding]; other site 339670013693 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 339670013694 enoyl-CoA hydratase; Provisional; Region: PRK09076 339670013695 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670013696 substrate binding site [chemical binding]; other site 339670013697 oxyanion hole (OAH) forming residues; other site 339670013698 trimer interface [polypeptide binding]; other site 339670013699 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 339670013700 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 339670013701 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 339670013702 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 339670013703 tetrameric interface [polypeptide binding]; other site 339670013704 NAD binding site [chemical binding]; other site 339670013705 catalytic residues [active] 339670013706 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 339670013707 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 339670013708 active site 339670013709 acyl-activating enzyme (AAE) consensus motif; other site 339670013710 putative CoA binding site [chemical binding]; other site 339670013711 AMP binding site [chemical binding]; other site 339670013712 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670013713 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670013714 active site 339670013715 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670013716 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670013717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013718 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 339670013719 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 339670013720 active site residues [active] 339670013721 dimer interface [polypeptide binding]; other site 339670013722 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 339670013723 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 339670013724 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 339670013725 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 339670013726 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 339670013727 active site 339670013728 short chain dehydrogenase; Validated; Region: PRK05855 339670013729 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670013730 classical (c) SDRs; Region: SDR_c; cd05233 339670013731 NAD(P) binding site [chemical binding]; other site 339670013732 active site 339670013733 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 339670013734 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 339670013735 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 339670013736 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 339670013737 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670013738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013739 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670013740 dimerization interface [polypeptide binding]; other site 339670013741 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 339670013742 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 339670013743 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 339670013744 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 339670013745 GAF domain; Region: GAF; pfam01590 339670013746 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670013747 Walker A motif; other site 339670013748 ATP binding site [chemical binding]; other site 339670013749 Walker B motif; other site 339670013750 arginine finger; other site 339670013751 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670013752 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670013753 catalytic loop [active] 339670013754 iron binding site [ion binding]; other site 339670013755 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 339670013756 putative hydrophobic ligand binding site [chemical binding]; other site 339670013757 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 339670013758 CopC domain; Region: CopC; pfam04234 339670013759 Protein of unknown function (DUF461); Region: DUF461; pfam04314 339670013760 Leucine rich repeat; Region: LRR_8; pfam13855 339670013761 Leucine rich repeat; Region: LRR_8; pfam13855 339670013762 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 339670013763 active site 339670013764 ATP binding site [chemical binding]; other site 339670013765 substrate binding site [chemical binding]; other site 339670013766 activation loop (A-loop); other site 339670013767 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 339670013768 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 339670013769 PYR/PP interface [polypeptide binding]; other site 339670013770 dimer interface [polypeptide binding]; other site 339670013771 TPP binding site [chemical binding]; other site 339670013772 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 339670013773 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 339670013774 TPP-binding site [chemical binding]; other site 339670013775 dimer interface [polypeptide binding]; other site 339670013776 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670013777 D-galactonate transporter; Region: 2A0114; TIGR00893 339670013778 putative substrate translocation pore; other site 339670013779 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 339670013780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670013781 NAD(P) binding site [chemical binding]; other site 339670013782 active site 339670013783 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670013784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013785 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670013786 dimerization interface [polypeptide binding]; other site 339670013787 substrate binding pocket [chemical binding]; other site 339670013788 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670013789 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 339670013790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670013791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013792 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 339670013793 putative dimerization interface [polypeptide binding]; other site 339670013794 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 339670013795 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670013796 inhibitor-cofactor binding pocket; inhibition site 339670013797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670013798 catalytic residue [active] 339670013799 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 339670013800 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 339670013801 NADP binding site [chemical binding]; other site 339670013802 active site 339670013803 steroid binding site; other site 339670013804 Cupin; Region: Cupin_6; pfam12852 339670013805 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670013806 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013807 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013808 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670013809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013810 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670013811 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013812 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 339670013813 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 339670013814 EamA-like transporter family; Region: EamA; pfam00892 339670013815 EamA-like transporter family; Region: EamA; pfam00892 339670013816 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 339670013817 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670013818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013819 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670013820 dimerization interface [polypeptide binding]; other site 339670013821 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 339670013822 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 339670013823 Walker A/P-loop; other site 339670013824 ATP binding site [chemical binding]; other site 339670013825 Q-loop/lid; other site 339670013826 ABC transporter signature motif; other site 339670013827 Walker B; other site 339670013828 D-loop; other site 339670013829 H-loop/switch region; other site 339670013830 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 339670013831 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 339670013832 Walker A/P-loop; other site 339670013833 ATP binding site [chemical binding]; other site 339670013834 Q-loop/lid; other site 339670013835 ABC transporter signature motif; other site 339670013836 Walker B; other site 339670013837 D-loop; other site 339670013838 H-loop/switch region; other site 339670013839 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 339670013840 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 339670013841 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 339670013842 TM-ABC transporter signature motif; other site 339670013843 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670013844 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 339670013845 TM-ABC transporter signature motif; other site 339670013846 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670013847 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670013848 dimerization interface [polypeptide binding]; other site 339670013849 ligand binding site [chemical binding]; other site 339670013850 putative outer membrane lipoprotein; Provisional; Region: PRK09967 339670013851 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670013852 ligand binding site [chemical binding]; other site 339670013853 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 339670013854 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 339670013855 dimerization interface [polypeptide binding]; other site 339670013856 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670013857 metal binding site [ion binding]; metal-binding site 339670013858 active site 339670013859 I-site; other site 339670013860 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 339670013861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670013862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013863 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 339670013864 putative dimerization interface [polypeptide binding]; other site 339670013865 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 339670013866 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 339670013867 active site 339670013868 putative substrate binding pocket [chemical binding]; other site 339670013869 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 339670013870 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670013871 D-galactonate transporter; Region: 2A0114; TIGR00893 339670013872 putative substrate translocation pore; other site 339670013873 amidase; Provisional; Region: PRK09201 339670013874 Amidase; Region: Amidase; cl11426 339670013875 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670013876 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670013877 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670013878 Transcriptional regulators [Transcription]; Region: FadR; COG2186 339670013879 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670013880 DNA-binding site [nucleotide binding]; DNA binding site 339670013881 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 339670013882 Amidohydrolase; Region: Amidohydro_2; pfam04909 339670013883 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 339670013884 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 339670013885 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 339670013886 putative ligand binding site [chemical binding]; other site 339670013887 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670013888 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670013889 TM-ABC transporter signature motif; other site 339670013890 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 339670013891 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670013892 Walker A/P-loop; other site 339670013893 ATP binding site [chemical binding]; other site 339670013894 Q-loop/lid; other site 339670013895 ABC transporter signature motif; other site 339670013896 Walker B; other site 339670013897 D-loop; other site 339670013898 H-loop/switch region; other site 339670013899 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670013900 short chain dehydrogenase; Provisional; Region: PRK08628 339670013901 classical (c) SDRs; Region: SDR_c; cd05233 339670013902 NAD(P) binding site [chemical binding]; other site 339670013903 active site 339670013904 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 339670013905 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 339670013906 putative active site pocket [active] 339670013907 metal binding site [ion binding]; metal-binding site 339670013908 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 339670013909 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 339670013910 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 339670013911 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 339670013912 NAD binding site [chemical binding]; other site 339670013913 homotetramer interface [polypeptide binding]; other site 339670013914 homodimer interface [polypeptide binding]; other site 339670013915 active site 339670013916 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 339670013917 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670013918 Protein of unknown function (DUF971); Region: DUF971; cl01414 339670013919 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 339670013920 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 339670013921 substrate binding pocket [chemical binding]; other site 339670013922 active site 339670013923 iron coordination sites [ion binding]; other site 339670013924 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 339670013925 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 339670013926 active site 339670013927 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 339670013928 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 339670013929 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670013930 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 339670013931 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 339670013932 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 339670013933 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 339670013934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013935 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670013936 dimerization interface [polypeptide binding]; other site 339670013937 malic enzyme; Reviewed; Region: PRK12861 339670013938 Malic enzyme, N-terminal domain; Region: malic; pfam00390 339670013939 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 339670013940 putative NAD(P) binding site [chemical binding]; other site 339670013941 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 339670013942 H+ Antiporter protein; Region: 2A0121; TIGR00900 339670013943 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 339670013944 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670013945 catalytic residue [active] 339670013946 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 339670013947 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 339670013948 Sulfate transporter family; Region: Sulfate_transp; pfam00916 339670013949 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 339670013950 Uncharacterized conserved protein [Function unknown]; Region: COG3025 339670013951 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 339670013952 putative active site [active] 339670013953 putative metal binding residues [ion binding]; other site 339670013954 signature motif; other site 339670013955 putative triphosphate binding site [ion binding]; other site 339670013956 CHAD domain; Region: CHAD; pfam05235 339670013957 Cytochrome c; Region: Cytochrom_C; pfam00034 339670013958 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670013959 Cytochrome c; Region: Cytochrom_C; pfam00034 339670013960 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 339670013961 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 339670013962 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670013963 Methylamine utilisation protein MauE; Region: MauE; pfam07291 339670013964 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 339670013965 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670013966 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013967 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670013968 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 339670013969 conserved cys residue [active] 339670013970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670013971 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 339670013972 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 339670013973 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 339670013974 Zn binding site [ion binding]; other site 339670013975 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 339670013976 Peptidase family M28; Region: Peptidase_M28; pfam04389 339670013977 active site 339670013978 metal binding site [ion binding]; metal-binding site 339670013979 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 339670013980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 339670013981 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 339670013982 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 339670013983 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670013984 N-terminal plug; other site 339670013985 ligand-binding site [chemical binding]; other site 339670013986 H+ Antiporter protein; Region: 2A0121; TIGR00900 339670013987 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670013988 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670013989 trimer interface [polypeptide binding]; other site 339670013990 eyelet of channel; other site 339670013991 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 339670013992 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 339670013993 choline-sulfatase; Region: chol_sulfatase; TIGR03417 339670013994 Sulfatase; Region: Sulfatase; cl17466 339670013995 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 339670013996 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 339670013997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670013998 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670013999 dimerization interface [polypeptide binding]; other site 339670014000 substrate binding pocket [chemical binding]; other site 339670014001 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 339670014002 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 339670014003 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 339670014004 putative active site [active] 339670014005 putative substrate binding site [chemical binding]; other site 339670014006 putative cosubstrate binding site; other site 339670014007 catalytic site [active] 339670014008 Amino acid permease; Region: AA_permease_2; pfam13520 339670014009 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 339670014010 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 339670014011 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 339670014012 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 339670014013 FAD binding pocket [chemical binding]; other site 339670014014 FAD binding motif [chemical binding]; other site 339670014015 phosphate binding motif [ion binding]; other site 339670014016 beta-alpha-beta structure motif; other site 339670014017 NAD binding pocket [chemical binding]; other site 339670014018 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 339670014019 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670014020 catalytic loop [active] 339670014021 iron binding site [ion binding]; other site 339670014022 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670014023 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 339670014024 [2Fe-2S] cluster binding site [ion binding]; other site 339670014025 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 339670014026 putative alpha subunit interface [polypeptide binding]; other site 339670014027 putative active site [active] 339670014028 putative substrate binding site [chemical binding]; other site 339670014029 Fe binding site [ion binding]; other site 339670014030 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 339670014031 Electron transfer flavoprotein domain; Region: ETF; pfam01012 339670014032 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 339670014033 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 339670014034 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 339670014035 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 339670014036 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 339670014037 4Fe-4S binding domain; Region: Fer4; cl02805 339670014038 Cysteine-rich domain; Region: CCG; pfam02754 339670014039 Cysteine-rich domain; Region: CCG; pfam02754 339670014040 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 339670014041 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 339670014042 putative active site [active] 339670014043 putative FMN binding site [chemical binding]; other site 339670014044 putative substrate binding site [chemical binding]; other site 339670014045 putative catalytic residue [active] 339670014046 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670014047 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 339670014048 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 339670014049 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 339670014050 active site 339670014051 dimer interface [polypeptide binding]; other site 339670014052 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 339670014053 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 339670014054 dimer interface [polypeptide binding]; other site 339670014055 active site 339670014056 glycine-pyridoxal phosphate binding site [chemical binding]; other site 339670014057 folate binding site [chemical binding]; other site 339670014058 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670014059 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 339670014060 conserved cys residue [active] 339670014061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670014062 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 339670014063 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 339670014064 sugar binding site [chemical binding]; other site 339670014065 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670014066 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670014067 DNA-binding site [nucleotide binding]; DNA binding site 339670014068 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670014069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670014070 homodimer interface [polypeptide binding]; other site 339670014071 catalytic residue [active] 339670014072 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 339670014073 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 339670014074 NAD binding site [chemical binding]; other site 339670014075 catalytic Zn binding site [ion binding]; other site 339670014076 structural Zn binding site [ion binding]; other site 339670014077 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 339670014078 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670014079 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670014080 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670014081 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 339670014082 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 339670014083 Ligand binding site; other site 339670014084 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670014085 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014086 putative substrate translocation pore; other site 339670014087 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014088 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 339670014089 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 339670014090 active site 339670014091 TDP-binding site; other site 339670014092 acceptor substrate-binding pocket; other site 339670014093 homodimer interface [polypeptide binding]; other site 339670014094 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 339670014095 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670014096 transcriptional regulator BetI; Validated; Region: PRK00767 339670014097 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670014098 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 339670014099 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 339670014100 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 339670014101 tetrameric interface [polypeptide binding]; other site 339670014102 NAD binding site [chemical binding]; other site 339670014103 catalytic residues [active] 339670014104 choline dehydrogenase; Validated; Region: PRK02106 339670014105 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670014106 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 339670014107 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 339670014108 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 339670014109 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 339670014110 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 339670014111 Walker A/P-loop; other site 339670014112 ATP binding site [chemical binding]; other site 339670014113 Q-loop/lid; other site 339670014114 ABC transporter signature motif; other site 339670014115 Walker B; other site 339670014116 D-loop; other site 339670014117 H-loop/switch region; other site 339670014118 ABC-2 type transporter; Region: ABC2_membrane; cl17235 339670014119 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 339670014120 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 339670014121 PAS fold; Region: PAS_4; pfam08448 339670014122 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670014123 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670014124 dimer interface [polypeptide binding]; other site 339670014125 phosphorylation site [posttranslational modification] 339670014126 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670014127 ATP binding site [chemical binding]; other site 339670014128 G-X-G motif; other site 339670014129 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 339670014130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670014131 active site 339670014132 phosphorylation site [posttranslational modification] 339670014133 intermolecular recognition site; other site 339670014134 dimerization interface [polypeptide binding]; other site 339670014135 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 339670014136 Putative esterase; Region: Esterase; pfam00756 339670014137 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 339670014138 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670014139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014140 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 339670014141 putative effector binding pocket; other site 339670014142 putative dimerization interface [polypeptide binding]; other site 339670014143 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670014144 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670014145 active site 339670014146 catalytic tetrad [active] 339670014147 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 339670014148 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 339670014149 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670014150 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 339670014151 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 339670014152 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 339670014153 putative ligand binding site [chemical binding]; other site 339670014154 NAD binding site [chemical binding]; other site 339670014155 catalytic site [active] 339670014156 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 339670014157 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 339670014158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670014159 ABC-ATPase subunit interface; other site 339670014160 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 339670014161 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 339670014162 Walker A/P-loop; other site 339670014163 ATP binding site [chemical binding]; other site 339670014164 Q-loop/lid; other site 339670014165 ABC transporter signature motif; other site 339670014166 Walker B; other site 339670014167 D-loop; other site 339670014168 H-loop/switch region; other site 339670014169 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 339670014170 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670014171 ABC-ATPase subunit interface; other site 339670014172 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 339670014173 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670014174 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670014175 catalytic residue [active] 339670014176 HipA N-terminal domain; Region: Couple_hipA; pfam13657 339670014177 HipA-like N-terminal domain; Region: HipA_N; pfam07805 339670014178 HipA-like C-terminal domain; Region: HipA_C; pfam07804 339670014179 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 339670014180 non-specific DNA binding site [nucleotide binding]; other site 339670014181 salt bridge; other site 339670014182 sequence-specific DNA binding site [nucleotide binding]; other site 339670014183 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 339670014184 active site 339670014185 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 339670014186 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 339670014187 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 339670014188 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670014189 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 339670014190 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 339670014191 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 339670014192 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670014193 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 339670014194 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 339670014195 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 339670014196 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670014197 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 339670014198 conserved cys residue [active] 339670014199 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 339670014200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670014201 Transcriptional regulators [Transcription]; Region: FadR; COG2186 339670014202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670014203 DNA-binding site [nucleotide binding]; DNA binding site 339670014204 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 339670014205 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 339670014206 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 339670014207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 339670014208 putative aldolase; Validated; Region: PRK08130 339670014209 intersubunit interface [polypeptide binding]; other site 339670014210 active site 339670014211 Zn2+ binding site [ion binding]; other site 339670014212 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014213 D-galactonate transporter; Region: 2A0114; TIGR00893 339670014214 putative substrate translocation pore; other site 339670014215 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 339670014216 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670014217 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 339670014218 putative NAD(P) binding site [chemical binding]; other site 339670014219 active site 339670014220 putative substrate binding site [chemical binding]; other site 339670014221 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670014222 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670014223 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 339670014224 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670014225 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014226 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670014227 substrate binding pocket [chemical binding]; other site 339670014228 dimerization interface [polypeptide binding]; other site 339670014229 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 339670014230 Ubiquitin-like proteins; Region: UBQ; cl00155 339670014231 charged pocket; other site 339670014232 hydrophobic patch; other site 339670014233 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 339670014234 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 339670014235 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670014236 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 339670014237 conserved cys residue [active] 339670014238 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 339670014239 metal binding site [ion binding]; metal-binding site 339670014240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670014241 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670014242 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670014243 dimer interface [polypeptide binding]; other site 339670014244 conserved gate region; other site 339670014245 putative PBP binding loops; other site 339670014246 ABC-ATPase subunit interface; other site 339670014247 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 339670014248 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 339670014249 Walker A/P-loop; other site 339670014250 ATP binding site [chemical binding]; other site 339670014251 Q-loop/lid; other site 339670014252 ABC transporter signature motif; other site 339670014253 Walker B; other site 339670014254 D-loop; other site 339670014255 H-loop/switch region; other site 339670014256 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 339670014257 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 339670014258 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 339670014259 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670014260 Coenzyme A binding pocket [chemical binding]; other site 339670014261 NIPSNAP; Region: NIPSNAP; pfam07978 339670014262 Predicted flavoprotein [General function prediction only]; Region: COG0431 339670014263 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670014264 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 339670014265 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 339670014266 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 339670014267 trimer interface [polypeptide binding]; other site 339670014268 YadA-like C-terminal region; Region: YadA; pfam03895 339670014269 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 339670014270 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670014271 ligand binding site [chemical binding]; other site 339670014272 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 339670014273 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 339670014274 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 339670014275 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670014276 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 339670014277 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 339670014278 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 339670014279 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 339670014280 ATP-grasp domain; Region: ATP-grasp_4; cl17255 339670014281 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 339670014282 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 339670014283 carboxyltransferase (CT) interaction site; other site 339670014284 biotinylation site [posttranslational modification]; other site 339670014285 enoyl-CoA hydratase; Provisional; Region: PRK05995 339670014286 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670014287 substrate binding site [chemical binding]; other site 339670014288 oxyanion hole (OAH) forming residues; other site 339670014289 trimer interface [polypeptide binding]; other site 339670014290 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 339670014291 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 339670014292 isovaleryl-CoA dehydrogenase; Region: PLN02519 339670014293 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 339670014294 substrate binding site [chemical binding]; other site 339670014295 FAD binding site [chemical binding]; other site 339670014296 catalytic base [active] 339670014297 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670014298 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670014299 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 339670014300 Transcriptional regulators [Transcription]; Region: MarR; COG1846 339670014301 MarR family; Region: MarR; pfam01047 339670014302 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670014303 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 339670014304 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 339670014305 alpha subunit interface [polypeptide binding]; other site 339670014306 active site 339670014307 substrate binding site [chemical binding]; other site 339670014308 Fe binding site [ion binding]; other site 339670014309 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 339670014310 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 339670014311 FMN-binding pocket [chemical binding]; other site 339670014312 flavin binding motif; other site 339670014313 phosphate binding motif [ion binding]; other site 339670014314 beta-alpha-beta structure motif; other site 339670014315 NAD binding pocket [chemical binding]; other site 339670014316 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670014317 catalytic loop [active] 339670014318 iron binding site [ion binding]; other site 339670014319 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 339670014320 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670014321 iron-sulfur cluster [ion binding]; other site 339670014322 [2Fe-2S] cluster binding site [ion binding]; other site 339670014323 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 339670014324 alpha subunit interface [polypeptide binding]; other site 339670014325 active site 339670014326 substrate binding site [chemical binding]; other site 339670014327 Fe binding site [ion binding]; other site 339670014328 benzoate transport; Region: 2A0115; TIGR00895 339670014329 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014330 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670014331 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670014332 trimer interface [polypeptide binding]; other site 339670014333 eyelet of channel; other site 339670014334 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 339670014335 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670014336 N-terminal plug; other site 339670014337 ligand-binding site [chemical binding]; other site 339670014338 putative oxidoreductase; Provisional; Region: PRK10083 339670014339 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 339670014340 putative NAD(P) binding site [chemical binding]; other site 339670014341 catalytic Zn binding site [ion binding]; other site 339670014342 structural Zn binding site [ion binding]; other site 339670014343 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 339670014344 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 339670014345 metal binding site [ion binding]; metal-binding site 339670014346 substrate binding pocket [chemical binding]; other site 339670014347 Transcriptional regulators [Transcription]; Region: GntR; COG1802 339670014348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670014349 DNA-binding site [nucleotide binding]; DNA binding site 339670014350 FCD domain; Region: FCD; pfam07729 339670014351 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 339670014352 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 339670014353 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 339670014354 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014355 D-galactonate transporter; Region: 2A0114; TIGR00893 339670014356 putative substrate translocation pore; other site 339670014357 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 339670014358 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670014359 substrate binding pocket [chemical binding]; other site 339670014360 membrane-bound complex binding site; other site 339670014361 hinge residues; other site 339670014362 Cytochrome c; Region: Cytochrom_C; cl11414 339670014363 Cytochrome c; Region: Cytochrom_C; cl11414 339670014364 Cytochrome c [Energy production and conversion]; Region: COG3258 339670014365 Cytochrome c; Region: Cytochrom_C; pfam00034 339670014366 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 339670014367 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670014368 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670014369 trimer interface [polypeptide binding]; other site 339670014370 eyelet of channel; other site 339670014371 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670014372 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 339670014373 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670014374 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 339670014375 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 339670014376 active site 339670014377 metal binding site [ion binding]; metal-binding site 339670014378 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670014379 dimerization interface [polypeptide binding]; other site 339670014380 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670014381 ATP binding site [chemical binding]; other site 339670014382 Mg2+ binding site [ion binding]; other site 339670014383 G-X-G motif; other site 339670014384 osmolarity response regulator; Provisional; Region: ompR; PRK09468 339670014385 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670014386 active site 339670014387 phosphorylation site [posttranslational modification] 339670014388 intermolecular recognition site; other site 339670014389 dimerization interface [polypeptide binding]; other site 339670014390 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670014391 DNA binding site [nucleotide binding] 339670014392 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 339670014393 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670014394 catalytic residues [active] 339670014395 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 339670014396 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670014397 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670014398 DNA-binding site [nucleotide binding]; DNA binding site 339670014399 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670014400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670014401 homodimer interface [polypeptide binding]; other site 339670014402 catalytic residue [active] 339670014403 Transglycosylase; Region: Transgly; pfam00912 339670014404 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 339670014405 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 339670014406 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 339670014407 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 339670014408 active site 339670014409 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 339670014410 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670014411 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014412 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670014413 dimerization interface [polypeptide binding]; other site 339670014414 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 339670014415 active site 339670014416 tetramer interface [polypeptide binding]; other site 339670014417 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670014418 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670014419 trimer interface [polypeptide binding]; other site 339670014420 eyelet of channel; other site 339670014421 benzoate transport; Region: 2A0115; TIGR00895 339670014422 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014423 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 339670014424 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 339670014425 Mechanosensitive ion channel; Region: MS_channel; pfam00924 339670014426 aldehyde dehydrogenase family 7 member; Region: PLN02315 339670014427 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 339670014428 tetrameric interface [polypeptide binding]; other site 339670014429 NAD binding site [chemical binding]; other site 339670014430 catalytic residues [active] 339670014431 lysine transporter; Provisional; Region: PRK10836 339670014432 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670014433 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670014434 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670014435 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670014436 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 339670014437 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 339670014438 putative active site [active] 339670014439 catalytic site [active] 339670014440 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 339670014441 putative active site [active] 339670014442 catalytic site [active] 339670014443 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 339670014444 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 339670014445 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 339670014446 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 339670014447 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 339670014448 homodimer interface [polypeptide binding]; other site 339670014449 NAD binding pocket [chemical binding]; other site 339670014450 ATP binding pocket [chemical binding]; other site 339670014451 Mg binding site [ion binding]; other site 339670014452 active-site loop [active] 339670014453 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 339670014454 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 339670014455 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 339670014456 peptidase domain interface [polypeptide binding]; other site 339670014457 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 339670014458 active site 339670014459 catalytic triad [active] 339670014460 calcium binding site [ion binding]; other site 339670014461 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670014462 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670014463 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670014464 putative DNA binding site [nucleotide binding]; other site 339670014465 putative Zn2+ binding site [ion binding]; other site 339670014466 AsnC family; Region: AsnC_trans_reg; pfam01037 339670014467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670014468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014469 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670014470 dimerization interface [polypeptide binding]; other site 339670014471 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 339670014472 agmatinase; Region: agmatinase; TIGR01230 339670014473 oligomer interface [polypeptide binding]; other site 339670014474 putative active site [active] 339670014475 Mn binding site [ion binding]; other site 339670014476 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670014477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014478 putative substrate translocation pore; other site 339670014479 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 339670014480 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 339670014481 THF binding site; other site 339670014482 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 339670014483 substrate binding site [chemical binding]; other site 339670014484 THF binding site; other site 339670014485 zinc-binding site [ion binding]; other site 339670014486 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 339670014487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014488 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 339670014489 putative dimerization interface [polypeptide binding]; other site 339670014490 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 339670014491 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 339670014492 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 339670014493 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 339670014494 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 339670014495 Transposase, Mutator family; Region: Transposase_mut; pfam00872 339670014496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3826 339670014497 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014498 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670014499 putative substrate translocation pore; other site 339670014500 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 339670014501 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 339670014502 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 339670014503 NAD(P) binding site [chemical binding]; other site 339670014504 catalytic residues [active] 339670014505 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 339670014506 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 339670014507 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670014508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670014509 conserved gate region; other site 339670014510 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 339670014511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670014512 dimer interface [polypeptide binding]; other site 339670014513 conserved gate region; other site 339670014514 putative PBP binding loops; other site 339670014515 ABC-ATPase subunit interface; other site 339670014516 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 339670014517 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670014518 Walker A/P-loop; other site 339670014519 ATP binding site [chemical binding]; other site 339670014520 Q-loop/lid; other site 339670014521 ABC transporter signature motif; other site 339670014522 Walker B; other site 339670014523 D-loop; other site 339670014524 H-loop/switch region; other site 339670014525 TOBE domain; Region: TOBE_2; pfam08402 339670014526 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 339670014527 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 339670014528 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 339670014529 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670014530 catalytic residue [active] 339670014531 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014532 D-galactonate transporter; Region: 2A0114; TIGR00893 339670014533 putative substrate translocation pore; other site 339670014534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014535 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 339670014536 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 339670014537 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 339670014538 shikimate binding site; other site 339670014539 NAD(P) binding site [chemical binding]; other site 339670014540 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 339670014541 Dehydroquinase class II; Region: DHquinase_II; pfam01220 339670014542 active site 339670014543 trimer interface [polypeptide binding]; other site 339670014544 dimer interface [polypeptide binding]; other site 339670014545 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 339670014546 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 339670014547 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 339670014548 dimer interface [polypeptide binding]; other site 339670014549 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 339670014550 active site 339670014551 Fe binding site [ion binding]; other site 339670014552 PAS fold; Region: PAS_4; pfam08448 339670014553 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670014554 putative active site [active] 339670014555 heme pocket [chemical binding]; other site 339670014556 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670014557 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670014558 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670014559 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670014560 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670014561 dimerization interface [polypeptide binding]; other site 339670014562 ligand binding site [chemical binding]; other site 339670014563 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670014564 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014565 putative substrate translocation pore; other site 339670014566 Predicted membrane protein [Function unknown]; Region: COG2259 339670014567 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 339670014568 SnoaL-like domain; Region: SnoaL_2; pfam12680 339670014569 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 339670014570 catalytic triad [active] 339670014571 conserved cis-peptide bond; other site 339670014572 galactarate dehydratase; Region: galactar-dH20; TIGR03248 339670014573 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 339670014574 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 339670014575 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 339670014576 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 339670014577 putative active site [active] 339670014578 catalytic residue [active] 339670014579 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 339670014580 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 339670014581 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 339670014582 dimer interface [polypeptide binding]; other site 339670014583 NADP binding site [chemical binding]; other site 339670014584 catalytic residues [active] 339670014585 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014586 D-galactonate transporter; Region: 2A0114; TIGR00893 339670014587 putative substrate translocation pore; other site 339670014588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014589 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 339670014590 Peptidase family M50; Region: Peptidase_M50; pfam02163 339670014591 active site 339670014592 putative substrate binding region [chemical binding]; other site 339670014593 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 339670014594 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670014595 non-specific DNA binding site [nucleotide binding]; other site 339670014596 salt bridge; other site 339670014597 sequence-specific DNA binding site [nucleotide binding]; other site 339670014598 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670014599 active site 339670014600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670014601 dimer interface [polypeptide binding]; other site 339670014602 conserved gate region; other site 339670014603 ABC-ATPase subunit interface; other site 339670014604 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 339670014605 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 339670014606 Walker A/P-loop; other site 339670014607 ATP binding site [chemical binding]; other site 339670014608 Q-loop/lid; other site 339670014609 ABC transporter signature motif; other site 339670014610 Walker B; other site 339670014611 D-loop; other site 339670014612 H-loop/switch region; other site 339670014613 NIL domain; Region: NIL; pfam09383 339670014614 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 339670014615 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 339670014616 active site 339670014617 non-prolyl cis peptide bond; other site 339670014618 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 339670014619 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 339670014620 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 339670014621 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670014622 dimer interface [polypeptide binding]; other site 339670014623 phosphorylation site [posttranslational modification] 339670014624 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670014625 ATP binding site [chemical binding]; other site 339670014626 Mg2+ binding site [ion binding]; other site 339670014627 G-X-G motif; other site 339670014628 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 339670014629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670014630 active site 339670014631 phosphorylation site [posttranslational modification] 339670014632 intermolecular recognition site; other site 339670014633 dimerization interface [polypeptide binding]; other site 339670014634 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670014635 Walker A motif; other site 339670014636 ATP binding site [chemical binding]; other site 339670014637 Walker B motif; other site 339670014638 arginine finger; other site 339670014639 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670014640 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 339670014641 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670014642 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 339670014643 catalytic site [active] 339670014644 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 339670014645 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 339670014646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670014647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014648 LysR substrate binding domain; Region: LysR_substrate; pfam03466 339670014649 dimerization interface [polypeptide binding]; other site 339670014650 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670014651 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 339670014652 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 339670014653 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670014654 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670014655 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 339670014656 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 339670014657 substrate binding pocket [chemical binding]; other site 339670014658 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670014659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670014660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014661 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 339670014662 putative effector binding pocket; other site 339670014663 putative dimerization interface [polypeptide binding]; other site 339670014664 Transposase; Region: DEDD_Tnp_IS110; pfam01548 339670014665 H-NS histone family; Region: Histone_HNS; pfam00816 339670014666 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 339670014667 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670014668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670014669 active site 339670014670 phosphorylation site [posttranslational modification] 339670014671 intermolecular recognition site; other site 339670014672 dimerization interface [polypeptide binding]; other site 339670014673 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670014674 DNA binding site [nucleotide binding] 339670014675 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670014676 Purine nucleoside permease (NUP); Region: NUP; pfam06516 339670014677 LysE type translocator; Region: LysE; cl00565 339670014678 selenophosphate synthetase; Provisional; Region: PRK00943 339670014679 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 339670014680 dimerization interface [polypeptide binding]; other site 339670014681 putative ATP binding site [chemical binding]; other site 339670014682 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 339670014683 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670014684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670014685 DNA-binding site [nucleotide binding]; DNA binding site 339670014686 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670014687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670014688 homodimer interface [polypeptide binding]; other site 339670014689 catalytic residue [active] 339670014690 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 339670014691 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670014692 inhibitor-cofactor binding pocket; inhibition site 339670014693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670014694 catalytic residue [active] 339670014695 succinic semialdehyde dehydrogenase; Region: PLN02278 339670014696 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 339670014697 tetramerization interface [polypeptide binding]; other site 339670014698 NAD(P) binding site [chemical binding]; other site 339670014699 catalytic residues [active] 339670014700 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670014701 PAS domain; Region: PAS_9; pfam13426 339670014702 putative active site [active] 339670014703 heme pocket [chemical binding]; other site 339670014704 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 339670014705 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670014706 dimer interface [polypeptide binding]; other site 339670014707 putative CheW interface [polypeptide binding]; other site 339670014708 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670014709 PAS domain; Region: PAS_9; pfam13426 339670014710 putative active site [active] 339670014711 heme pocket [chemical binding]; other site 339670014712 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 339670014713 dimerization interface [polypeptide binding]; other site 339670014714 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 339670014715 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670014716 dimer interface [polypeptide binding]; other site 339670014717 putative CheW interface [polypeptide binding]; other site 339670014718 Uncharacterized conserved protein [Function unknown]; Region: COG1683 339670014719 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 339670014720 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 339670014721 dimer interface [polypeptide binding]; other site 339670014722 active site 339670014723 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 339670014724 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670014725 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670014726 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 339670014727 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014728 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670014729 putative substrate translocation pore; other site 339670014730 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 339670014731 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 339670014732 metal binding site [ion binding]; metal-binding site 339670014733 putative dimer interface [polypeptide binding]; other site 339670014734 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670014735 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 339670014736 FMN binding site [chemical binding]; other site 339670014737 active site 339670014738 substrate binding site [chemical binding]; other site 339670014739 catalytic residue [active] 339670014740 Isochorismatase family; Region: Isochorismatase; pfam00857 339670014741 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 339670014742 catalytic triad [active] 339670014743 conserved cis-peptide bond; other site 339670014744 Pirin; Region: Pirin; pfam02678 339670014745 Pirin-related protein [General function prediction only]; Region: COG1741 339670014746 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 339670014747 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670014748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014749 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670014750 putative effector binding pocket; other site 339670014751 dimerization interface [polypeptide binding]; other site 339670014752 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 339670014753 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 339670014754 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 339670014755 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670014756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670014757 This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD). PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation...; Region: Rieske_RO_Alpha_PrnD; cd03537 339670014758 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670014759 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 339670014760 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 339670014761 putative NAD(P) binding site [chemical binding]; other site 339670014762 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670014763 TAP-like protein; Region: Abhydrolase_4; pfam08386 339670014764 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670014765 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 339670014766 putative active site [active] 339670014767 putative FMN binding site [chemical binding]; other site 339670014768 putative substrate binding site [chemical binding]; other site 339670014769 putative catalytic residue [active] 339670014770 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670014771 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 339670014772 TAP-like protein; Region: Abhydrolase_4; pfam08386 339670014773 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 339670014774 classical (c) SDRs; Region: SDR_c; cd05233 339670014775 NAD(P) binding site [chemical binding]; other site 339670014776 active site 339670014777 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670014778 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 339670014779 FMN binding site [chemical binding]; other site 339670014780 active site 339670014781 substrate binding site [chemical binding]; other site 339670014782 catalytic residue [active] 339670014783 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670014784 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670014785 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670014786 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014787 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670014788 putative effector binding pocket; other site 339670014789 dimerization interface [polypeptide binding]; other site 339670014790 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 339670014791 classical (c) SDRs; Region: SDR_c; cd05233 339670014792 NAD(P) binding site [chemical binding]; other site 339670014793 active site 339670014794 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670014795 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 339670014796 FMN binding site [chemical binding]; other site 339670014797 active site 339670014798 substrate binding site [chemical binding]; other site 339670014799 catalytic residue [active] 339670014800 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670014801 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670014802 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670014803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670014804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670014805 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 339670014806 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 339670014807 NADP binding site [chemical binding]; other site 339670014808 dimer interface [polypeptide binding]; other site 339670014809 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 339670014810 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 339670014811 short chain dehydrogenase; Provisional; Region: PRK06180 339670014812 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 339670014813 NADP binding site [chemical binding]; other site 339670014814 active site 339670014815 steroid binding site; other site 339670014816 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670014817 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670014818 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 339670014819 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 339670014820 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 339670014821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670014822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014823 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 339670014824 putative effector binding pocket; other site 339670014825 dimerization interface [polypeptide binding]; other site 339670014826 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 339670014827 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014828 putative substrate translocation pore; other site 339670014829 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 339670014830 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 339670014831 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 339670014832 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670014833 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670014834 active site 339670014835 catalytic tetrad [active] 339670014836 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670014837 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 339670014838 FMN binding site [chemical binding]; other site 339670014839 active site 339670014840 substrate binding site [chemical binding]; other site 339670014841 catalytic residue [active] 339670014842 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670014843 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670014844 active site 339670014845 catalytic tetrad [active] 339670014846 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 339670014847 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 339670014848 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670014849 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670014850 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 339670014851 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 339670014852 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 339670014853 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 339670014854 conserved cys residue [active] 339670014855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670014856 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670014857 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 339670014858 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014859 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670014860 dimerization interface [polypeptide binding]; other site 339670014861 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 339670014862 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670014863 substrate binding pocket [chemical binding]; other site 339670014864 membrane-bound complex binding site; other site 339670014865 hinge residues; other site 339670014866 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 339670014867 Predicted deacylase [General function prediction only]; Region: COG3608 339670014868 active site 339670014869 Zn binding site [ion binding]; other site 339670014870 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 339670014871 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 339670014872 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670014873 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670014874 trimer interface [polypeptide binding]; other site 339670014875 eyelet of channel; other site 339670014876 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 339670014877 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 339670014878 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670014879 N-terminal plug; other site 339670014880 ligand-binding site [chemical binding]; other site 339670014881 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 339670014882 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 339670014883 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 339670014884 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 339670014885 intersubunit interface [polypeptide binding]; other site 339670014886 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 339670014887 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 339670014888 putative PBP binding regions; other site 339670014889 ABC-ATPase subunit interface; other site 339670014890 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 339670014891 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 339670014892 Walker A/P-loop; other site 339670014893 ATP binding site [chemical binding]; other site 339670014894 Q-loop/lid; other site 339670014895 ABC transporter signature motif; other site 339670014896 Walker B; other site 339670014897 D-loop; other site 339670014898 H-loop/switch region; other site 339670014899 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670014900 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 339670014901 active site 339670014902 Predicted membrane protein [Function unknown]; Region: COG2860 339670014903 UPF0126 domain; Region: UPF0126; pfam03458 339670014904 UPF0126 domain; Region: UPF0126; pfam03458 339670014905 Transglycosylase; Region: Transgly; pfam00912 339670014906 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 339670014907 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 339670014908 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 339670014909 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 339670014910 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 339670014911 glutamyl-tRNA(Gln) amidotransferase, subunit E; Region: gatE_arch; TIGR00134 339670014912 hypothetical protein; Provisional; Region: PRK11171 339670014913 Cupin domain; Region: Cupin_2; pfam07883 339670014914 Cupin domain; Region: Cupin_2; pfam07883 339670014915 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 339670014916 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 339670014917 HIT family signature motif; other site 339670014918 catalytic residue [active] 339670014919 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 339670014920 Beta-lactamase; Region: Beta-lactamase; pfam00144 339670014921 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670014922 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 339670014923 putative C-terminal domain interface [polypeptide binding]; other site 339670014924 putative GSH binding site (G-site) [chemical binding]; other site 339670014925 putative dimer interface [polypeptide binding]; other site 339670014926 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 339670014927 putative N-terminal domain interface [polypeptide binding]; other site 339670014928 putative dimer interface [polypeptide binding]; other site 339670014929 putative substrate binding pocket (H-site) [chemical binding]; other site 339670014930 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 339670014931 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 339670014932 NADH(P)-binding; Region: NAD_binding_10; pfam13460 339670014933 putative NAD(P) binding site [chemical binding]; other site 339670014934 active site 339670014935 DoxX-like family; Region: DoxX_3; pfam13781 339670014936 Predicted transcriptional regulators [Transcription]; Region: COG1510 339670014937 MarR family; Region: MarR_2; pfam12802 339670014938 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 339670014939 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 339670014940 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 339670014941 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 339670014942 short chain dehydrogenase; Validated; Region: PRK08264 339670014943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670014944 NAD(P) binding site [chemical binding]; other site 339670014945 active site 339670014946 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670014947 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670014948 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670014949 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 339670014950 putative hydrophobic ligand binding site [chemical binding]; other site 339670014951 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 339670014952 putative hydrophobic ligand binding site [chemical binding]; other site 339670014953 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 339670014954 Amidohydrolase; Region: Amidohydro_2; pfam04909 339670014955 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 339670014956 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014957 putative substrate translocation pore; other site 339670014958 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670014959 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670014960 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 339670014961 active site 339670014962 catalytic residues [active] 339670014963 metal binding site [ion binding]; metal-binding site 339670014964 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670014965 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670014966 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670014967 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 339670014968 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 339670014969 putative catalytic residue [active] 339670014970 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670014971 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014972 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670014973 putative effector binding pocket; other site 339670014974 dimerization interface [polypeptide binding]; other site 339670014975 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670014976 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670014977 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 339670014978 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 339670014979 active site 339670014980 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670014981 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 339670014982 C-terminal domain interface [polypeptide binding]; other site 339670014983 GSH binding site (G-site) [chemical binding]; other site 339670014984 dimer interface [polypeptide binding]; other site 339670014985 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 339670014986 N-terminal domain interface [polypeptide binding]; other site 339670014987 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 339670014988 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 339670014989 active site residue [active] 339670014990 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 339670014991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670014992 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 339670014993 putative dimerization interface [polypeptide binding]; other site 339670014994 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 339670014995 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 339670014996 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 339670014997 tetramer interface [polypeptide binding]; other site 339670014998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670014999 catalytic residue [active] 339670015000 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 339670015001 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 339670015002 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 339670015003 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670015004 non-specific DNA binding site [nucleotide binding]; other site 339670015005 salt bridge; other site 339670015006 sequence-specific DNA binding site [nucleotide binding]; other site 339670015007 Sulfatase; Region: Sulfatase; cl17466 339670015008 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 339670015009 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 339670015010 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 339670015011 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 339670015012 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 339670015013 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 339670015014 Uncharacterized conserved protein [Function unknown]; Region: COG5361 339670015015 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 339670015016 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 339670015017 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 339670015018 metal-binding site [ion binding] 339670015019 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 339670015020 metal-binding site [ion binding] 339670015021 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 339670015022 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 339670015023 metal-binding site [ion binding] 339670015024 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 339670015025 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670015026 motif II; other site 339670015027 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670015028 MgtC family; Region: MgtC; pfam02308 339670015029 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 339670015030 dimerization interface [polypeptide binding]; other site 339670015031 putative active cleft [active] 339670015032 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 339670015033 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 339670015034 dimer interface [polypeptide binding]; other site 339670015035 ligand binding site [chemical binding]; other site 339670015036 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670015037 dimer interface [polypeptide binding]; other site 339670015038 putative CheW interface [polypeptide binding]; other site 339670015039 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 339670015040 CoenzymeA binding site [chemical binding]; other site 339670015041 subunit interaction site [polypeptide binding]; other site 339670015042 PHB binding site; other site 339670015043 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 339670015044 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 339670015045 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670015046 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670015047 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 339670015048 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 339670015049 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 339670015050 substrate binding site [chemical binding]; other site 339670015051 ligand binding site [chemical binding]; other site 339670015052 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 339670015053 substrate binding site [chemical binding]; other site 339670015054 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 339670015055 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 339670015056 dimer interface [polypeptide binding]; other site 339670015057 active site 339670015058 citrylCoA binding site [chemical binding]; other site 339670015059 oxalacetate/citrate binding site [chemical binding]; other site 339670015060 coenzyme A binding site [chemical binding]; other site 339670015061 catalytic triad [active] 339670015062 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 339670015063 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 339670015064 tetramer interface [polypeptide binding]; other site 339670015065 active site 339670015066 Mg2+/Mn2+ binding site [ion binding]; other site 339670015067 Propionate catabolism activator; Region: PrpR_N; pfam06506 339670015068 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 339670015069 PAS domain; Region: PAS; smart00091 339670015070 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670015071 Walker A motif; other site 339670015072 ATP binding site [chemical binding]; other site 339670015073 Walker B motif; other site 339670015074 arginine finger; other site 339670015075 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 339670015076 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 339670015077 CGNR zinc finger; Region: zf-CGNR; pfam11706 339670015078 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 339670015079 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670015080 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 339670015081 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 339670015082 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670015083 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 339670015084 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670015085 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 339670015086 CoA binding domain; Region: CoA_binding_2; pfam13380 339670015087 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 339670015088 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 339670015089 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670015090 Coenzyme A binding pocket [chemical binding]; other site 339670015091 H-NS histone family; Region: Histone_HNS; pfam00816 339670015092 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 339670015093 PAS fold; Region: PAS_4; pfam08448 339670015094 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 339670015095 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670015096 Walker B motif; other site 339670015097 arginine finger; other site 339670015098 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670015099 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 339670015100 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670015101 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 339670015102 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670015103 putative acetyltransferase YhhY; Provisional; Region: PRK10140 339670015104 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670015105 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 339670015106 Phosphoesterase family; Region: Phosphoesterase; pfam04185 339670015107 Domain of unknown function (DUF756); Region: DUF756; pfam05506 339670015108 Domain of unknown function (DUF756); Region: DUF756; pfam05506 339670015109 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 339670015110 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 339670015111 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 339670015112 active site residue [active] 339670015113 outer membrane porin, OprD family; Region: OprD; pfam03573 339670015114 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 339670015115 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670015116 Walker A/P-loop; other site 339670015117 ATP binding site [chemical binding]; other site 339670015118 Q-loop/lid; other site 339670015119 ABC transporter signature motif; other site 339670015120 Walker B; other site 339670015121 D-loop; other site 339670015122 H-loop/switch region; other site 339670015123 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 339670015124 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 339670015125 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670015126 Walker A/P-loop; other site 339670015127 ATP binding site [chemical binding]; other site 339670015128 Q-loop/lid; other site 339670015129 ABC transporter signature motif; other site 339670015130 Walker B; other site 339670015131 D-loop; other site 339670015132 H-loop/switch region; other site 339670015133 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 339670015134 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 339670015135 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 339670015136 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670015137 dimer interface [polypeptide binding]; other site 339670015138 conserved gate region; other site 339670015139 putative PBP binding loops; other site 339670015140 ABC-ATPase subunit interface; other site 339670015141 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 339670015142 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 339670015143 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670015144 ABC-ATPase subunit interface; other site 339670015145 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 339670015146 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 339670015147 peptide binding site [polypeptide binding]; other site 339670015148 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 339670015149 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670015150 non-specific DNA binding site [nucleotide binding]; other site 339670015151 salt bridge; other site 339670015152 sequence-specific DNA binding site [nucleotide binding]; other site 339670015153 Cupin domain; Region: Cupin_2; pfam07883 339670015154 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 339670015155 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015156 putative substrate translocation pore; other site 339670015157 POT family; Region: PTR2; cl17359 339670015158 OpgC protein; Region: OpgC_C; pfam10129 339670015159 Predicted permeases [General function prediction only]; Region: RarD; COG2962 339670015160 acylphosphatase; Provisional; Region: PRK14424 339670015161 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 339670015162 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 339670015163 putative NADP binding site [chemical binding]; other site 339670015164 putative substrate binding site [chemical binding]; other site 339670015165 active site 339670015166 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 339670015167 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 339670015168 active site 339670015169 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 339670015170 LytB protein; Region: LYTB; pfam02401 339670015171 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 339670015172 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670015173 FeS/SAM binding site; other site 339670015174 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 339670015175 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 339670015176 SnoaL-like domain; Region: SnoaL_2; pfam12680 339670015177 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 339670015178 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 339670015179 carbon starvation protein A; Provisional; Region: PRK15015 339670015180 Carbon starvation protein CstA; Region: CstA; pfam02554 339670015181 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 339670015182 PRC-barrel domain; Region: PRC; pfam05239 339670015183 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 339670015184 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 339670015185 hypothetical protein; Provisional; Region: PRK11239 339670015186 Protein of unknown function, DUF480; Region: DUF480; pfam04337 339670015187 short chain dehydrogenase; Provisional; Region: PRK07023 339670015188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670015189 NAD(P) binding site [chemical binding]; other site 339670015190 active site 339670015191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 339670015192 MOSC domain; Region: MOSC; pfam03473 339670015193 3-alpha domain; Region: 3-alpha; pfam03475 339670015194 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 339670015195 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 339670015196 inhibitor site; inhibition site 339670015197 active site 339670015198 dimer interface [polypeptide binding]; other site 339670015199 catalytic residue [active] 339670015200 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 339670015201 intersubunit interface [polypeptide binding]; other site 339670015202 active site 339670015203 Zn2+ binding site [ion binding]; other site 339670015204 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 339670015205 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670015206 non-specific DNA binding site [nucleotide binding]; other site 339670015207 salt bridge; other site 339670015208 sequence-specific DNA binding site [nucleotide binding]; other site 339670015209 Cupin domain; Region: Cupin_2; pfam07883 339670015210 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 339670015211 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670015212 DNA-binding site [nucleotide binding]; DNA binding site 339670015213 UTRA domain; Region: UTRA; pfam07702 339670015214 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 339670015215 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 339670015216 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670015217 substrate binding pocket [chemical binding]; other site 339670015218 membrane-bound complex binding site; other site 339670015219 hinge residues; other site 339670015220 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670015221 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015222 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670015223 dimerization interface [polypeptide binding]; other site 339670015224 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 339670015225 cytosine deaminase; Provisional; Region: PRK05985 339670015226 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 339670015227 active site 339670015228 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 339670015229 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 339670015230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670015231 Coenzyme A binding pocket [chemical binding]; other site 339670015232 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 339670015233 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 339670015234 aminotransferase; Validated; Region: PRK07046 339670015235 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670015236 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670015237 catalytic residue [active] 339670015238 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 339670015239 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 339670015240 metal binding site [ion binding]; metal-binding site 339670015241 putative dimer interface [polypeptide binding]; other site 339670015242 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 339670015243 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 339670015244 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670015245 catalytic residue [active] 339670015246 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670015247 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 339670015248 putative DNA binding site [nucleotide binding]; other site 339670015249 putative Zn2+ binding site [ion binding]; other site 339670015250 AsnC family; Region: AsnC_trans_reg; pfam01037 339670015251 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 339670015252 active site 339670015253 catalytic site [active] 339670015254 substrate binding site [chemical binding]; other site 339670015255 Tannase and feruloyl esterase; Region: Tannase; pfam07519 339670015256 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670015257 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670015258 trimer interface [polypeptide binding]; other site 339670015259 eyelet of channel; other site 339670015260 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 339670015261 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015262 putative substrate translocation pore; other site 339670015263 feruloyl-CoA synthase; Reviewed; Region: PRK08180 339670015264 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 339670015265 acyl-activating enzyme (AAE) consensus motif; other site 339670015266 putative AMP binding site [chemical binding]; other site 339670015267 putative active site [active] 339670015268 putative CoA binding site [chemical binding]; other site 339670015269 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 339670015270 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670015271 NAD(P) binding site [chemical binding]; other site 339670015272 catalytic residues [active] 339670015273 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 339670015274 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670015275 substrate binding site [chemical binding]; other site 339670015276 oxyanion hole (OAH) forming residues; other site 339670015277 trimer interface [polypeptide binding]; other site 339670015278 MarR family; Region: MarR_2; cl17246 339670015279 Transcriptional regulators [Transcription]; Region: MarR; COG1846 339670015280 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 339670015281 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670015282 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670015283 TM-ABC transporter signature motif; other site 339670015284 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 339670015285 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670015286 Walker A/P-loop; other site 339670015287 ATP binding site [chemical binding]; other site 339670015288 Q-loop/lid; other site 339670015289 ABC transporter signature motif; other site 339670015290 Walker B; other site 339670015291 D-loop; other site 339670015292 H-loop/switch region; other site 339670015293 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670015294 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 339670015295 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 339670015296 ligand binding site [chemical binding]; other site 339670015297 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 339670015298 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 339670015299 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 339670015300 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 339670015301 inhibitor site; inhibition site 339670015302 active site 339670015303 dimer interface [polypeptide binding]; other site 339670015304 catalytic residue [active] 339670015305 D-galactonate transporter; Region: 2A0114; TIGR00893 339670015306 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015307 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015308 dihydroxy-acid dehydratase; Validated; Region: PRK06131 339670015309 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 339670015310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015311 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 339670015312 putative dimerization interface [polypeptide binding]; other site 339670015313 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 339670015314 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 339670015315 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670015316 N-terminal plug; other site 339670015317 ligand-binding site [chemical binding]; other site 339670015318 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670015319 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670015320 DNA binding site [nucleotide binding] 339670015321 domain linker motif; other site 339670015322 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 339670015323 dimerization interface [polypeptide binding]; other site 339670015324 ligand binding site [chemical binding]; other site 339670015325 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 339670015326 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 339670015327 Walker A/P-loop; other site 339670015328 ATP binding site [chemical binding]; other site 339670015329 Q-loop/lid; other site 339670015330 ABC transporter signature motif; other site 339670015331 Walker B; other site 339670015332 D-loop; other site 339670015333 H-loop/switch region; other site 339670015334 TOBE domain; Region: TOBE; pfam03459 339670015335 TOBE domain; Region: TOBE_2; pfam08402 339670015336 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 339670015337 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 339670015338 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 339670015339 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 339670015340 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 339670015341 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 339670015342 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670015343 dimer interface [polypeptide binding]; other site 339670015344 conserved gate region; other site 339670015345 putative PBP binding loops; other site 339670015346 ABC-ATPase subunit interface; other site 339670015347 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 339670015348 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670015349 dimer interface [polypeptide binding]; other site 339670015350 conserved gate region; other site 339670015351 putative PBP binding loops; other site 339670015352 ABC-ATPase subunit interface; other site 339670015353 Fic family protein [Function unknown]; Region: COG3177 339670015354 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 339670015355 Fic/DOC family; Region: Fic; pfam02661 339670015356 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 339670015357 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 339670015358 FMN binding site [chemical binding]; other site 339670015359 substrate binding site [chemical binding]; other site 339670015360 putative catalytic residue [active] 339670015361 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 339670015362 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670015363 DNA-binding site [nucleotide binding]; DNA binding site 339670015364 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 339670015365 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 339670015366 FAD binding domain; Region: FAD_binding_4; pfam01565 339670015367 FAD binding domain; Region: FAD_binding_4; pfam01565 339670015368 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 339670015369 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 339670015370 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 339670015371 Cysteine-rich domain; Region: CCG; pfam02754 339670015372 Cysteine-rich domain; Region: CCG; pfam02754 339670015373 Domain of unknown function (DUF336); Region: DUF336; cl01249 339670015374 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 339670015375 active site 339670015376 Cache domain; Region: Cache_1; pfam02743 339670015377 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670015378 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670015379 metal binding site [ion binding]; metal-binding site 339670015380 active site 339670015381 I-site; other site 339670015382 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 339670015383 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 339670015384 Histidine kinase; Region: HisKA_3; pfam07730 339670015385 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670015386 ATP binding site [chemical binding]; other site 339670015387 Mg2+ binding site [ion binding]; other site 339670015388 G-X-G motif; other site 339670015389 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670015390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670015391 active site 339670015392 phosphorylation site [posttranslational modification] 339670015393 intermolecular recognition site; other site 339670015394 dimerization interface [polypeptide binding]; other site 339670015395 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670015396 DNA binding residues [nucleotide binding] 339670015397 dimerization interface [polypeptide binding]; other site 339670015398 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 339670015399 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 339670015400 VacJ like lipoprotein; Region: VacJ; cl01073 339670015401 hypothetical protein; Provisional; Region: PRK07077 339670015402 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 339670015403 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 339670015404 Active site cavity [active] 339670015405 catalytic acid [active] 339670015406 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670015407 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 339670015408 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 339670015409 active site lid residues [active] 339670015410 substrate binding pocket [chemical binding]; other site 339670015411 catalytic residues [active] 339670015412 substrate-Mg2+ binding site; other site 339670015413 aspartate-rich region 1; other site 339670015414 aspartate-rich region 2; other site 339670015415 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670015416 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 339670015417 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 339670015418 PAS fold; Region: PAS; pfam00989 339670015419 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670015420 putative active site [active] 339670015421 heme pocket [chemical binding]; other site 339670015422 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670015423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670015424 metal binding site [ion binding]; metal-binding site 339670015425 active site 339670015426 I-site; other site 339670015427 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 339670015428 Response regulator receiver domain; Region: Response_reg; pfam00072 339670015429 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670015430 active site 339670015431 phosphorylation site [posttranslational modification] 339670015432 intermolecular recognition site; other site 339670015433 dimerization interface [polypeptide binding]; other site 339670015434 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670015435 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670015436 dimer interface [polypeptide binding]; other site 339670015437 phosphorylation site [posttranslational modification] 339670015438 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670015439 ATP binding site [chemical binding]; other site 339670015440 Mg2+ binding site [ion binding]; other site 339670015441 G-X-G motif; other site 339670015442 Response regulator receiver domain; Region: Response_reg; pfam00072 339670015443 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670015444 active site 339670015445 phosphorylation site [posttranslational modification] 339670015446 intermolecular recognition site; other site 339670015447 dimerization interface [polypeptide binding]; other site 339670015448 Predicted flavoprotein [General function prediction only]; Region: COG0431 339670015449 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670015450 RNA polymerase sigma factor; Provisional; Region: PRK12545 339670015451 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670015452 Putative zinc-finger; Region: zf-HC2; pfam13490 339670015453 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 339670015454 ArsC family; Region: ArsC; pfam03960 339670015455 catalytic residues [active] 339670015456 ParA-like protein; Provisional; Region: PHA02518 339670015457 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670015458 P-loop; other site 339670015459 Magnesium ion binding site [ion binding]; other site 339670015460 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 339670015461 ParB-like nuclease domain; Region: ParB; smart00470 339670015462 Initiator Replication protein; Region: Rep_3; pfam01051 339670015463 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 339670015464 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 339670015465 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 339670015466 active site 339670015467 catalytic residues [active] 339670015468 Int/Topo IB signature motif; other site 339670015469 DNA binding site [nucleotide binding] 339670015470 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 339670015471 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 339670015472 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670015473 non-specific DNA binding site [nucleotide binding]; other site 339670015474 salt bridge; other site 339670015475 sequence-specific DNA binding site [nucleotide binding]; other site 339670015476 Cupin domain; Region: Cupin_2; pfam07883 339670015477 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 339670015478 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 339670015479 substrate-cofactor binding pocket; other site 339670015480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670015481 catalytic residue [active] 339670015482 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 339670015483 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 339670015484 NAD(P) binding site [chemical binding]; other site 339670015485 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670015486 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670015487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 339670015488 SnoaL-like domain; Region: SnoaL_2; pfam12680 339670015489 tartrate dehydrogenase; Region: TTC; TIGR02089 339670015490 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 339670015491 transcriptional activator TtdR; Provisional; Region: PRK09801 339670015492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015493 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 339670015494 putative effector binding pocket; other site 339670015495 putative dimerization interface [polypeptide binding]; other site 339670015496 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 339670015497 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 339670015498 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670015499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015500 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670015501 dimerization interface [polypeptide binding]; other site 339670015502 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 339670015503 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 339670015504 nucleophile elbow; other site 339670015505 Patatin phospholipase; Region: DUF3734; pfam12536 339670015506 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 339670015507 classical (c) SDRs; Region: SDR_c; cd05233 339670015508 NAD(P) binding site [chemical binding]; other site 339670015509 active site 339670015510 acetoacetate decarboxylase; Provisional; Region: PRK02265 339670015511 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 339670015512 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 339670015513 active site 339670015514 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 339670015515 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 339670015516 FAD binding pocket [chemical binding]; other site 339670015517 FAD binding motif [chemical binding]; other site 339670015518 phosphate binding motif [ion binding]; other site 339670015519 NAD binding pocket [chemical binding]; other site 339670015520 Predicted transcriptional regulators [Transcription]; Region: COG1695 339670015521 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 339670015522 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 339670015523 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 339670015524 phosphopeptide binding site; other site 339670015525 Catalytic domain of Protein Kinases; Region: PKc; cd00180 339670015526 active site 339670015527 ATP binding site [chemical binding]; other site 339670015528 substrate binding site [chemical binding]; other site 339670015529 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 339670015530 activation loop (A-loop); other site 339670015531 cyclase homology domain; Region: CHD; cd07302 339670015532 dimer interface [polypeptide binding]; other site 339670015533 metal binding site [ion binding]; metal-binding site 339670015534 AAA ATPase domain; Region: AAA_16; pfam13191 339670015535 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 339670015536 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 339670015537 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 339670015538 YcaO-like family; Region: YcaO; pfam02624 339670015539 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 339670015540 Inclusion body protein; Region: PixA; pfam12306 339670015541 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 339670015542 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670015543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670015544 choline dehydrogenase; Validated; Region: PRK02106 339670015545 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670015546 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 339670015547 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670015548 NAD(P) binding site [chemical binding]; other site 339670015549 catalytic residues [active] 339670015550 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670015551 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670015552 trimer interface [polypeptide binding]; other site 339670015553 eyelet of channel; other site 339670015554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670015555 active site 339670015556 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 339670015557 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 339670015558 putative NAD(P) binding site [chemical binding]; other site 339670015559 catalytic Zn binding site [ion binding]; other site 339670015560 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015561 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670015562 putative substrate translocation pore; other site 339670015563 Cupin domain; Region: Cupin_2; pfam07883 339670015564 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670015565 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670015566 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670015567 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670015568 active site 339670015569 catalytic tetrad [active] 339670015570 Lysine efflux permease [General function prediction only]; Region: COG1279 339670015571 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 339670015572 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015573 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670015574 dimerization interface [polypeptide binding]; other site 339670015575 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 339670015576 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 339670015577 ligand binding site [chemical binding]; other site 339670015578 flexible hinge region; other site 339670015579 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 339670015580 putative switch regulator; other site 339670015581 non-specific DNA interactions [nucleotide binding]; other site 339670015582 DNA binding site [nucleotide binding] 339670015583 sequence specific DNA binding site [nucleotide binding]; other site 339670015584 putative cAMP binding site [chemical binding]; other site 339670015585 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670015586 Ligand Binding Site [chemical binding]; other site 339670015587 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 339670015588 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 339670015589 serine O-acetyltransferase; Region: cysE; TIGR01172 339670015590 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 339670015591 trimer interface [polypeptide binding]; other site 339670015592 active site 339670015593 substrate binding site [chemical binding]; other site 339670015594 CoA binding site [chemical binding]; other site 339670015595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670015596 short chain dehydrogenase; Provisional; Region: PRK09134 339670015597 NAD(P) binding site [chemical binding]; other site 339670015598 active site 339670015599 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 339670015600 GTP cyclohydrolase I; Provisional; Region: PLN03044 339670015601 active site 339670015602 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670015603 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015604 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 339670015605 substrate binding pocket [chemical binding]; other site 339670015606 dimerization interface [polypeptide binding]; other site 339670015607 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 339670015608 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 339670015609 Coenzyme A transferase; Region: CoA_trans; cl17247 339670015610 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 339670015611 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 339670015612 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 339670015613 tetramer interface [polypeptide binding]; other site 339670015614 active site 339670015615 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 339670015616 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 339670015617 benzoate transport; Region: 2A0115; TIGR00895 339670015618 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015619 putative substrate translocation pore; other site 339670015620 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015621 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670015622 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 339670015623 homotrimer interaction site [polypeptide binding]; other site 339670015624 putative active site [active] 339670015625 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670015626 active site 339670015627 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670015628 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670015629 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 339670015630 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670015631 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670015632 acyl-activating enzyme (AAE) consensus motif; other site 339670015633 acyl-activating enzyme (AAE) consensus motif; other site 339670015634 AMP binding site [chemical binding]; other site 339670015635 active site 339670015636 CoA binding site [chemical binding]; other site 339670015637 H+ Antiporter protein; Region: 2A0121; TIGR00900 339670015638 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015639 putative substrate translocation pore; other site 339670015640 Ectoine synthase; Region: Ectoine_synth; pfam06339 339670015641 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670015642 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015643 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670015644 putative effector binding pocket; other site 339670015645 dimerization interface [polypeptide binding]; other site 339670015646 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 339670015647 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 339670015648 potential catalytic triad [active] 339670015649 conserved cys residue [active] 339670015650 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 339670015651 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 339670015652 potential catalytic triad [active] 339670015653 conserved cys residue [active] 339670015654 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 339670015655 classical (c) SDRs; Region: SDR_c; cd05233 339670015656 NAD(P) binding site [chemical binding]; other site 339670015657 active site 339670015658 Uncharacterized conserved protein [Function unknown]; Region: COG1359 339670015659 Major royal jelly protein; Region: MRJP; pfam03022 339670015660 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 339670015661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 339670015662 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 339670015663 active site 339670015664 dimer interface [polypeptide binding]; other site 339670015665 motif 1; other site 339670015666 motif 2; other site 339670015667 motif 3; other site 339670015668 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 339670015669 anticodon binding site; other site 339670015670 Autoinducer binding domain; Region: Autoind_bind; pfam03472 339670015671 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670015672 DNA binding residues [nucleotide binding] 339670015673 dimerization interface [polypeptide binding]; other site 339670015674 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 339670015675 Fatty acid desaturase; Region: FA_desaturase; pfam00487 339670015676 putative di-iron ligands [ion binding]; other site 339670015677 ATP-grasp domain; Region: ATP-grasp_4; cl17255 339670015678 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670015679 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 339670015680 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670015681 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670015682 catalytic residue [active] 339670015683 Uncharacterized conserved protein [Function unknown]; Region: COG3791 339670015684 Peptidase C26; Region: Peptidase_C26; pfam07722 339670015685 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 339670015686 catalytic triad [active] 339670015687 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 339670015688 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 339670015689 RNA polymerase sigma factor; Provisional; Region: PRK11922 339670015690 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670015691 DNA binding residues [nucleotide binding] 339670015692 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670015693 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670015694 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 339670015695 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 339670015696 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 339670015697 Chromate transporter; Region: Chromate_transp; pfam02417 339670015698 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 339670015699 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 339670015700 putative metal binding site [ion binding]; other site 339670015701 putative homodimer interface [polypeptide binding]; other site 339670015702 putative homotetramer interface [polypeptide binding]; other site 339670015703 putative homodimer-homodimer interface [polypeptide binding]; other site 339670015704 putative allosteric switch controlling residues; other site 339670015705 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 339670015706 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 339670015707 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 339670015708 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 339670015709 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670015710 N-terminal plug; other site 339670015711 ligand-binding site [chemical binding]; other site 339670015712 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015713 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670015714 putative substrate translocation pore; other site 339670015715 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670015716 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 339670015717 Probable transposase; Region: OrfB_IS605; pfam01385 339670015718 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670015719 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670015720 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 339670015721 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 339670015722 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 339670015723 Phosphoesterase family; Region: Phosphoesterase; pfam04185 339670015724 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 339670015725 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670015726 Coenzyme A binding pocket [chemical binding]; other site 339670015727 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 339670015728 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 339670015729 DNA binding residues [nucleotide binding] 339670015730 dimer interface [polypeptide binding]; other site 339670015731 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 339670015732 Amidohydrolase; Region: Amidohydro_2; pfam04909 339670015733 Uncharacterized conserved protein [Function unknown]; Region: COG3391 339670015734 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 339670015735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015736 D-galactonate transporter; Region: 2A0114; TIGR00893 339670015737 putative substrate translocation pore; other site 339670015738 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 339670015739 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 339670015740 inhibitor site; inhibition site 339670015741 active site 339670015742 dimer interface [polypeptide binding]; other site 339670015743 catalytic residue [active] 339670015744 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 339670015745 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 339670015746 putative active site pocket [active] 339670015747 putative metal binding site [ion binding]; other site 339670015748 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 339670015749 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 339670015750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670015751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015752 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670015753 dimerization interface [polypeptide binding]; other site 339670015754 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670015755 D-galactonate transporter; Region: 2A0114; TIGR00893 339670015756 putative substrate translocation pore; other site 339670015757 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 339670015758 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 339670015759 catalytic core [active] 339670015760 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 339670015761 Phosphotransferase enzyme family; Region: APH; pfam01636 339670015762 putative active site [active] 339670015763 putative substrate binding site [chemical binding]; other site 339670015764 ATP binding site [chemical binding]; other site 339670015765 short chain dehydrogenase; Provisional; Region: PRK07035 339670015766 classical (c) SDRs; Region: SDR_c; cd05233 339670015767 NAD(P) binding site [chemical binding]; other site 339670015768 active site 339670015769 short chain dehydrogenase; Provisional; Region: PRK06172 339670015770 classical (c) SDRs; Region: SDR_c; cd05233 339670015771 NAD(P) binding site [chemical binding]; other site 339670015772 active site 339670015773 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670015774 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670015775 active site 339670015776 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 339670015777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015778 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 339670015779 substrate binding pocket [chemical binding]; other site 339670015780 dimerization interface [polypeptide binding]; other site 339670015781 DnaJ domain; Region: DnaJ; pfam00226 339670015782 HSP70 interaction site [polypeptide binding]; other site 339670015783 DNA polymerase II; Reviewed; Region: PRK05762 339670015784 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 339670015785 active site 339670015786 catalytic site [active] 339670015787 substrate binding site [chemical binding]; other site 339670015788 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 339670015789 active site 339670015790 metal-binding site 339670015791 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 339670015792 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670015793 putative active site [active] 339670015794 heme pocket [chemical binding]; other site 339670015795 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670015796 dimer interface [polypeptide binding]; other site 339670015797 phosphorylation site [posttranslational modification] 339670015798 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670015799 ATP binding site [chemical binding]; other site 339670015800 Mg2+ binding site [ion binding]; other site 339670015801 G-X-G motif; other site 339670015802 Response regulator receiver domain; Region: Response_reg; pfam00072 339670015803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670015804 active site 339670015805 phosphorylation site [posttranslational modification] 339670015806 intermolecular recognition site; other site 339670015807 dimerization interface [polypeptide binding]; other site 339670015808 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 339670015809 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 339670015810 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670015811 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 339670015812 pyrophosphatase PpaX; Provisional; Region: PRK13288 339670015813 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 339670015814 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670015815 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670015816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670015817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015818 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 339670015819 putative dimerization interface [polypeptide binding]; other site 339670015820 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670015821 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670015822 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670015823 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 339670015824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670015825 NAD(P) binding site [chemical binding]; other site 339670015826 active site 339670015827 benzoate transporter; Region: benE; TIGR00843 339670015828 Benzoate membrane transport protein; Region: BenE; pfam03594 339670015829 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 339670015830 putative di-iron ligands [ion binding]; other site 339670015831 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 339670015832 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 339670015833 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 339670015834 ATP binding site [chemical binding]; other site 339670015835 Mg++ binding site [ion binding]; other site 339670015836 motif III; other site 339670015837 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670015838 nucleotide binding region [chemical binding]; other site 339670015839 ATP-binding site [chemical binding]; other site 339670015840 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 339670015841 putative RNA binding site [nucleotide binding]; other site 339670015842 malate:quinone oxidoreductase; Validated; Region: PRK05257 339670015843 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 339670015844 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670015845 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 339670015846 AsnC family; Region: AsnC_trans_reg; pfam01037 339670015847 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 339670015848 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 339670015849 active site 339670015850 Zn binding site [ion binding]; other site 339670015851 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670015852 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670015853 dimerization interface [polypeptide binding]; other site 339670015854 ligand binding site [chemical binding]; other site 339670015855 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 339670015856 Mechanosensitive ion channel; Region: MS_channel; pfam00924 339670015857 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 339670015858 Peptidase family M23; Region: Peptidase_M23; pfam01551 339670015859 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 339670015860 Glycoside hydrolase family 71; Region: GH71; cd11577 339670015861 putative ligand binding site [chemical binding]; other site 339670015862 putative catalytic site [active] 339670015863 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 339670015864 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670015865 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670015866 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 339670015867 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 339670015868 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 339670015869 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670015870 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 339670015871 tyrosine kinase; Provisional; Region: PRK11519 339670015872 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 339670015873 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 339670015874 P loop; other site 339670015875 Nucleotide binding site [chemical binding]; other site 339670015876 DTAP/Switch II; other site 339670015877 Switch I; other site 339670015878 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 339670015879 Low molecular weight phosphatase family; Region: LMWPc; cd00115 339670015880 active site 339670015881 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 339670015882 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 339670015883 SLBB domain; Region: SLBB; pfam10531 339670015884 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 339670015885 Bacterial sugar transferase; Region: Bac_transf; pfam02397 339670015886 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 339670015887 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670015888 catalytic residues [active] 339670015889 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 339670015890 Probable transposase; Region: OrfB_IS605; pfam01385 339670015891 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670015892 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670015893 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670015894 S-adenosylmethionine binding site [chemical binding]; other site 339670015895 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 339670015896 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670015897 Coenzyme A binding pocket [chemical binding]; other site 339670015898 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670015899 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670015900 DNA-binding site [nucleotide binding]; DNA binding site 339670015901 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670015902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670015903 homodimer interface [polypeptide binding]; other site 339670015904 catalytic residue [active] 339670015905 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670015906 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670015907 active site 339670015908 catalytic tetrad [active] 339670015909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670015910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670015911 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670015912 putative effector binding pocket; other site 339670015913 dimerization interface [polypeptide binding]; other site 339670015914 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670015915 dimerization interface [polypeptide binding]; other site 339670015916 putative DNA binding site [nucleotide binding]; other site 339670015917 putative Zn2+ binding site [ion binding]; other site 339670015918 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670015919 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670015920 catalytic residue [active] 339670015921 Cupin domain; Region: Cupin_2; cl17218 339670015922 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 339670015923 classical (c) SDRs; Region: SDR_c; cd05233 339670015924 NAD(P) binding site [chemical binding]; other site 339670015925 active site 339670015926 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 339670015927 Predicted membrane protein [Function unknown]; Region: COG4541 339670015928 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 339670015929 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670015930 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670015931 putative DNA binding site [nucleotide binding]; other site 339670015932 putative Zn2+ binding site [ion binding]; other site 339670015933 AsnC family; Region: AsnC_trans_reg; pfam01037 339670015934 hypothetical protein; Provisional; Region: PRK11470 339670015935 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670015936 salt bridge; other site 339670015937 non-specific DNA binding site [nucleotide binding]; other site 339670015938 sequence-specific DNA binding site [nucleotide binding]; other site 339670015939 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670015940 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 339670015941 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 339670015942 catalytic residues [active] 339670015943 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 339670015944 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670015945 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670015946 dimer interface [polypeptide binding]; other site 339670015947 phosphorylation site [posttranslational modification] 339670015948 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670015949 ATP binding site [chemical binding]; other site 339670015950 Mg2+ binding site [ion binding]; other site 339670015951 G-X-G motif; other site 339670015952 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 339670015953 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670015954 active site 339670015955 phosphorylation site [posttranslational modification] 339670015956 intermolecular recognition site; other site 339670015957 dimerization interface [polypeptide binding]; other site 339670015958 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 339670015959 BetR domain; Region: BetR; pfam08667 339670015960 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 339670015961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670015962 active site 339670015963 phosphorylation site [posttranslational modification] 339670015964 intermolecular recognition site; other site 339670015965 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 339670015966 Sel1-like repeats; Region: SEL1; smart00671 339670015967 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 339670015968 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670015969 dimer interface [polypeptide binding]; other site 339670015970 phosphorylation site [posttranslational modification] 339670015971 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670015972 ATP binding site [chemical binding]; other site 339670015973 Mg2+ binding site [ion binding]; other site 339670015974 G-X-G motif; other site 339670015975 Response regulator receiver domain; Region: Response_reg; pfam00072 339670015976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670015977 active site 339670015978 phosphorylation site [posttranslational modification] 339670015979 intermolecular recognition site; other site 339670015980 dimerization interface [polypeptide binding]; other site 339670015981 transcriptional regulator RcsB; Provisional; Region: PRK10840 339670015982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670015983 active site 339670015984 phosphorylation site [posttranslational modification] 339670015985 intermolecular recognition site; other site 339670015986 dimerization interface [polypeptide binding]; other site 339670015987 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670015988 DNA binding residues [nucleotide binding] 339670015989 dimerization interface [polypeptide binding]; other site 339670015990 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670015991 dimer interface [polypeptide binding]; other site 339670015992 phosphorylation site [posttranslational modification] 339670015993 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670015994 ATP binding site [chemical binding]; other site 339670015995 Mg2+ binding site [ion binding]; other site 339670015996 G-X-G motif; other site 339670015997 Response regulator receiver domain; Region: Response_reg; pfam00072 339670015998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670015999 active site 339670016000 phosphorylation site [posttranslational modification] 339670016001 intermolecular recognition site; other site 339670016002 dimerization interface [polypeptide binding]; other site 339670016003 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 339670016004 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 339670016005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670016006 catalytic residue [active] 339670016007 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670016008 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 339670016009 putative DNA binding site [nucleotide binding]; other site 339670016010 putative Zn2+ binding site [ion binding]; other site 339670016011 AsnC family; Region: AsnC_trans_reg; pfam01037 339670016012 pyruvate dehydrogenase; Provisional; Region: PRK09124 339670016013 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 339670016014 PYR/PP interface [polypeptide binding]; other site 339670016015 tetramer interface [polypeptide binding]; other site 339670016016 dimer interface [polypeptide binding]; other site 339670016017 TPP binding site [chemical binding]; other site 339670016018 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 339670016019 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 339670016020 TPP-binding site [chemical binding]; other site 339670016021 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670016022 Acyltransferase family; Region: Acyl_transf_3; pfam01757 339670016023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016025 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670016026 dimerization interface [polypeptide binding]; other site 339670016027 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 339670016028 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 339670016029 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 339670016030 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016031 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016032 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 339670016033 putative dimerization interface [polypeptide binding]; other site 339670016034 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 339670016035 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670016036 S-adenosylmethionine binding site [chemical binding]; other site 339670016037 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 339670016038 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670016039 Coenzyme A binding pocket [chemical binding]; other site 339670016040 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 339670016041 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670016042 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670016043 DNA binding residues [nucleotide binding] 339670016044 dimerization interface [polypeptide binding]; other site 339670016045 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016046 D-galactonate transporter; Region: 2A0114; TIGR00893 339670016047 putative substrate translocation pore; other site 339670016048 Predicted transcriptional regulators [Transcription]; Region: COG1733 339670016049 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670016050 dimerization interface [polypeptide binding]; other site 339670016051 putative DNA binding site [nucleotide binding]; other site 339670016052 putative Zn2+ binding site [ion binding]; other site 339670016053 glutathionine S-transferase; Provisional; Region: PRK10542 339670016054 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 339670016055 C-terminal domain interface [polypeptide binding]; other site 339670016056 GSH binding site (G-site) [chemical binding]; other site 339670016057 dimer interface [polypeptide binding]; other site 339670016058 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 339670016059 dimer interface [polypeptide binding]; other site 339670016060 N-terminal domain interface [polypeptide binding]; other site 339670016061 substrate binding pocket (H-site) [chemical binding]; other site 339670016062 Outer membrane efflux protein; Region: OEP; pfam02321 339670016063 Outer membrane efflux protein; Region: OEP; pfam02321 339670016064 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 339670016065 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670016066 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 339670016067 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 339670016068 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 339670016069 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 339670016070 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 339670016071 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 339670016072 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670016073 dimerization interface [polypeptide binding]; other site 339670016074 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670016075 dimer interface [polypeptide binding]; other site 339670016076 phosphorylation site [posttranslational modification] 339670016077 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670016078 ATP binding site [chemical binding]; other site 339670016079 Mg2+ binding site [ion binding]; other site 339670016080 G-X-G motif; other site 339670016081 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 339670016082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670016083 active site 339670016084 phosphorylation site [posttranslational modification] 339670016085 intermolecular recognition site; other site 339670016086 dimerization interface [polypeptide binding]; other site 339670016087 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670016088 DNA binding site [nucleotide binding] 339670016089 Outer membrane efflux protein; Region: OEP; pfam02321 339670016090 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 339670016091 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 339670016092 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 339670016093 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 339670016094 CopC domain; Region: CopC; pfam04234 339670016095 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 339670016096 generic binding surface I; other site 339670016097 generic binding surface II; other site 339670016098 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 339670016099 putative active site [active] 339670016100 putative catalytic site [active] 339670016101 putative Mg binding site IVb [ion binding]; other site 339670016102 putative phosphate binding site [ion binding]; other site 339670016103 putative DNA binding site [nucleotide binding]; other site 339670016104 putative Mg binding site IVa [ion binding]; other site 339670016105 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 339670016106 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 339670016107 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670016108 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 339670016109 FAD binding domain; Region: FAD_binding_4; pfam01565 339670016110 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 339670016111 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 339670016112 classical (c) SDRs; Region: SDR_c; cd05233 339670016113 NAD(P) binding site [chemical binding]; other site 339670016114 active site 339670016115 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 339670016116 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 339670016117 dimer interface [polypeptide binding]; other site 339670016118 active site 339670016119 glycine-pyridoxal phosphate binding site [chemical binding]; other site 339670016120 folate binding site [chemical binding]; other site 339670016121 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 339670016122 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 339670016123 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670016124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670016125 catalytic residue [active] 339670016126 Putative phosphatase (DUF442); Region: DUF442; cl17385 339670016127 PAAR motif; Region: PAAR_motif; pfam05488 339670016128 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 339670016129 active site 339670016130 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 339670016131 active site 339670016132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 339670016133 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 339670016134 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 339670016135 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 339670016136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 339670016137 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 339670016138 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016139 putative substrate translocation pore; other site 339670016140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016142 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670016143 putative effector binding pocket; other site 339670016144 dimerization interface [polypeptide binding]; other site 339670016145 3-hydroxyanthranilic acid dioxygenase; Region: 3-HAO; cl17399 339670016146 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670016147 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 339670016148 NAD(P) binding site [chemical binding]; other site 339670016149 catalytic residues [active] 339670016150 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 339670016151 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 339670016152 active site 339670016153 dimer interface [polypeptide binding]; other site 339670016154 metal binding site [ion binding]; metal-binding site 339670016155 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 339670016156 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 339670016157 dimer interface [polypeptide binding]; other site 339670016158 active site 339670016159 YciI-like protein; Reviewed; Region: PRK12863 339670016160 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 339670016161 iron-sulfur cluster [ion binding]; other site 339670016162 [2Fe-2S] cluster binding site [ion binding]; other site 339670016163 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670016164 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670016165 trimer interface [polypeptide binding]; other site 339670016166 eyelet of channel; other site 339670016167 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670016168 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 339670016169 putative C-terminal domain interface [polypeptide binding]; other site 339670016170 putative GSH binding site (G-site) [chemical binding]; other site 339670016171 putative dimer interface [polypeptide binding]; other site 339670016172 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 339670016173 dimer interface [polypeptide binding]; other site 339670016174 N-terminal domain interface [polypeptide binding]; other site 339670016175 putative substrate binding pocket (H-site) [chemical binding]; other site 339670016176 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670016177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670016178 topology modulation protein; Reviewed; Region: PRK08118 339670016179 AAA domain; Region: AAA_17; pfam13207 339670016180 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 339670016181 AAA domain; Region: AAA_12; pfam13087 339670016182 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 339670016183 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 339670016184 glutaminase active site [active] 339670016185 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 339670016186 dimer interface [polypeptide binding]; other site 339670016187 active site 339670016188 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 339670016189 dimer interface [polypeptide binding]; other site 339670016190 active site 339670016191 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 339670016192 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670016193 AsnC family; Region: AsnC_trans_reg; pfam01037 339670016194 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 339670016195 oligomerization interface [polypeptide binding]; other site 339670016196 active site 339670016197 metal binding site [ion binding]; metal-binding site 339670016198 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670016199 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670016200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670016201 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 339670016202 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 339670016203 DNA binding site [nucleotide binding] 339670016204 active site 339670016205 RES domain; Region: RES; cl02411 339670016206 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 339670016207 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016208 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670016209 putative substrate translocation pore; other site 339670016210 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670016211 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670016212 DNA binding site [nucleotide binding] 339670016213 domain linker motif; other site 339670016214 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 339670016215 dimerization interface [polypeptide binding]; other site 339670016216 ligand binding site [chemical binding]; other site 339670016217 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670016218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670016219 NAD(P) binding site [chemical binding]; other site 339670016220 active site 339670016221 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 339670016222 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670016223 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 339670016224 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 339670016225 tetrameric interface [polypeptide binding]; other site 339670016226 activator binding site; other site 339670016227 NADP binding site [chemical binding]; other site 339670016228 substrate binding site [chemical binding]; other site 339670016229 catalytic residues [active] 339670016230 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670016231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016232 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670016233 dimerization interface [polypeptide binding]; other site 339670016234 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 339670016235 CsbD-like; Region: CsbD; cl17424 339670016236 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 339670016237 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 339670016238 PAS domain; Region: PAS_9; pfam13426 339670016239 PAS domain S-box; Region: sensory_box; TIGR00229 339670016240 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670016241 putative active site [active] 339670016242 heme pocket [chemical binding]; other site 339670016243 PAS domain S-box; Region: sensory_box; TIGR00229 339670016244 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670016245 putative active site [active] 339670016246 heme pocket [chemical binding]; other site 339670016247 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670016248 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670016249 DNA binding residues [nucleotide binding] 339670016250 dimerization interface [polypeptide binding]; other site 339670016251 CsbD-like; Region: CsbD; pfam05532 339670016252 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670016253 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670016254 dimerization interface [polypeptide binding]; other site 339670016255 ligand binding site [chemical binding]; other site 339670016256 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670016257 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 339670016258 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 339670016259 HSP70 interaction site [polypeptide binding]; other site 339670016260 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 339670016261 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670016262 substrate binding pocket [chemical binding]; other site 339670016263 membrane-bound complex binding site; other site 339670016264 hinge residues; other site 339670016265 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 339670016266 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670016267 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 339670016268 Uncharacterized conserved protein [Function unknown]; Region: COG1262 339670016269 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 339670016270 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 339670016271 DNA binding residues [nucleotide binding] 339670016272 putative dimer interface [polypeptide binding]; other site 339670016273 Partial alpha/beta-hydrolase lipase region; Region: Abhydro_lipase; pfam04083 339670016274 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670016275 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 339670016276 PAS domain; Region: PAS_9; pfam13426 339670016277 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670016278 putative active site [active] 339670016279 heme pocket [chemical binding]; other site 339670016280 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670016281 DNA binding residues [nucleotide binding] 339670016282 dimerization interface [polypeptide binding]; other site 339670016283 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 339670016284 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016285 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670016286 putative substrate translocation pore; other site 339670016287 aspartate aminotransferase; Provisional; Region: PRK06108 339670016288 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670016289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670016290 homodimer interface [polypeptide binding]; other site 339670016291 catalytic residue [active] 339670016292 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 339670016293 Uncharacterized conserved protein [Function unknown]; Region: COG5135 339670016294 Epoxide hydrolase N terminus; Region: EHN; pfam06441 339670016295 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670016296 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670016297 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670016298 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 339670016299 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670016300 amidase; Provisional; Region: PRK07487 339670016301 Amidase; Region: Amidase; cl11426 339670016302 LysE type translocator; Region: LysE; cl00565 339670016303 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 339670016304 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 339670016305 ring oligomerisation interface [polypeptide binding]; other site 339670016306 ATP/Mg binding site [chemical binding]; other site 339670016307 stacking interactions; other site 339670016308 hinge regions; other site 339670016309 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 339670016310 oligomerisation interface [polypeptide binding]; other site 339670016311 mobile loop; other site 339670016312 roof hairpin; other site 339670016313 short chain dehydrogenase; Provisional; Region: PRK07577 339670016314 classical (c) SDRs; Region: SDR_c; cd05233 339670016315 NAD(P) binding site [chemical binding]; other site 339670016316 active site 339670016317 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 339670016318 Sulfatase; Region: Sulfatase; cl17466 339670016319 Sulfatase; Region: Sulfatase; cl17466 339670016320 Sulfatase; Region: Sulfatase; cl17466 339670016321 Uncharacterized conserved protein [Function unknown]; Region: COG1262 339670016322 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 339670016323 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 339670016324 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 339670016325 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 339670016326 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016327 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016328 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670016329 dimerization interface [polypeptide binding]; other site 339670016330 hypothetical protein; Provisional; Region: PRK05463 339670016331 benzoate transport; Region: 2A0115; TIGR00895 339670016332 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016333 putative substrate translocation pore; other site 339670016334 5-oxoprolinase; Region: PLN02666 339670016335 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 339670016336 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 339670016337 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 339670016338 RNase II stability modulator; Provisional; Region: PRK10060 339670016339 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670016340 metal binding site [ion binding]; metal-binding site 339670016341 active site 339670016342 I-site; other site 339670016343 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670016344 enoyl-CoA hydratase; Validated; Region: PRK08788 339670016345 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670016346 substrate binding site [chemical binding]; other site 339670016347 oxyanion hole (OAH) forming residues; other site 339670016348 trimer interface [polypeptide binding]; other site 339670016349 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 339670016350 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 339670016351 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 339670016352 Cupin; Region: Cupin_6; pfam12852 339670016353 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670016354 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670016355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670016356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016357 putative substrate translocation pore; other site 339670016358 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 339670016359 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 339670016360 tetramer interface [polypeptide binding]; other site 339670016361 active site 339670016362 Mg2+/Mn2+ binding site [ion binding]; other site 339670016363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670016364 Uncharacterized conserved protein [Function unknown]; Region: COG3268 339670016365 NAD(P) binding site [chemical binding]; other site 339670016366 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670016367 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670016368 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670016369 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 339670016370 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670016371 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 339670016372 putative C-terminal domain interface [polypeptide binding]; other site 339670016373 putative GSH binding site (G-site) [chemical binding]; other site 339670016374 putative dimer interface [polypeptide binding]; other site 339670016375 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 339670016376 dimer interface [polypeptide binding]; other site 339670016377 N-terminal domain interface [polypeptide binding]; other site 339670016378 putative substrate binding pocket (H-site) [chemical binding]; other site 339670016379 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 339670016380 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670016381 motif II; other site 339670016382 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 339670016383 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 339670016384 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 339670016385 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 339670016386 dimer interface [polypeptide binding]; other site 339670016387 active site 339670016388 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 339670016389 substrate binding site [chemical binding]; other site 339670016390 catalytic residue [active] 339670016391 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016393 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670016394 dimerization interface [polypeptide binding]; other site 339670016395 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 339670016396 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670016397 Predicted transcriptional regulator [Transcription]; Region: COG1959 339670016398 Transcriptional regulator; Region: Rrf2; pfam02082 339670016399 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 339670016400 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 339670016401 nucleotide binding site [chemical binding]; other site 339670016402 putative NEF/HSP70 interaction site [polypeptide binding]; other site 339670016403 SBD interface [polypeptide binding]; other site 339670016404 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 339670016405 nucleotide binding site [chemical binding]; other site 339670016406 putative NEF/HSP70 interaction site [polypeptide binding]; other site 339670016407 SBD interface [polypeptide binding]; other site 339670016408 DNA-K related protein; Region: DUF3731; pfam12531 339670016409 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 339670016410 Amidinotransferase; Region: Amidinotransf; pfam02274 339670016411 ornithine cyclodeaminase; Validated; Region: PRK07589 339670016412 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 339670016413 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670016414 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 339670016415 putative DNA binding site [nucleotide binding]; other site 339670016416 putative Zn2+ binding site [ion binding]; other site 339670016417 AsnC family; Region: AsnC_trans_reg; pfam01037 339670016418 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 339670016419 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 339670016420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 339670016421 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 339670016422 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 339670016423 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670016424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016426 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670016427 dimerization interface [polypeptide binding]; other site 339670016428 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670016429 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 339670016430 putative ligand binding site [chemical binding]; other site 339670016431 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670016432 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 339670016433 TM-ABC transporter signature motif; other site 339670016434 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 339670016435 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 339670016436 TM-ABC transporter signature motif; other site 339670016437 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 339670016438 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 339670016439 Walker A/P-loop; other site 339670016440 ATP binding site [chemical binding]; other site 339670016441 Q-loop/lid; other site 339670016442 ABC transporter signature motif; other site 339670016443 Walker B; other site 339670016444 D-loop; other site 339670016445 H-loop/switch region; other site 339670016446 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 339670016447 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 339670016448 Walker A/P-loop; other site 339670016449 ATP binding site [chemical binding]; other site 339670016450 Q-loop/lid; other site 339670016451 ABC transporter signature motif; other site 339670016452 Walker B; other site 339670016453 D-loop; other site 339670016454 H-loop/switch region; other site 339670016455 DinB family; Region: DinB; cl17821 339670016456 DinB superfamily; Region: DinB_2; pfam12867 339670016457 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 339670016458 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670016459 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 339670016460 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670016461 dimer interface [polypeptide binding]; other site 339670016462 phosphorylation site [posttranslational modification] 339670016463 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670016464 ATP binding site [chemical binding]; other site 339670016465 Mg2+ binding site [ion binding]; other site 339670016466 G-X-G motif; other site 339670016467 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670016468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670016469 active site 339670016470 phosphorylation site [posttranslational modification] 339670016471 intermolecular recognition site; other site 339670016472 dimerization interface [polypeptide binding]; other site 339670016473 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670016474 DNA binding site [nucleotide binding] 339670016475 NMT1-like family; Region: NMT1_2; pfam13379 339670016476 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 339670016477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016478 D-galactonate transporter; Region: 2A0114; TIGR00893 339670016479 putative substrate translocation pore; other site 339670016480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 339670016481 Histidine kinase; Region: HisKA_3; pfam07730 339670016482 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670016483 ATP binding site [chemical binding]; other site 339670016484 G-X-G motif; other site 339670016485 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670016486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670016487 active site 339670016488 phosphorylation site [posttranslational modification] 339670016489 intermolecular recognition site; other site 339670016490 dimerization interface [polypeptide binding]; other site 339670016491 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670016492 DNA binding residues [nucleotide binding] 339670016493 dimerization interface [polypeptide binding]; other site 339670016494 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 339670016495 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 339670016496 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 339670016497 active site 339670016498 LssY C-terminus; Region: LssY_C; pfam14067 339670016499 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 339670016500 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 339670016501 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 339670016502 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 339670016503 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 339670016504 choline dehydrogenase; Validated; Region: PRK02106 339670016505 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670016506 Probable transposase; Region: OrfB_IS605; pfam01385 339670016507 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670016508 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670016509 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670016510 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670016511 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670016512 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 339670016513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670016514 Coenzyme A binding pocket [chemical binding]; other site 339670016515 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 339670016516 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 339670016517 Flavin Reductases; Region: FlaRed; cl00801 339670016518 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 339670016519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670016520 active site 339670016521 phosphorylation site [posttranslational modification] 339670016522 intermolecular recognition site; other site 339670016523 dimerization interface [polypeptide binding]; other site 339670016524 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670016525 DNA binding residues [nucleotide binding] 339670016526 dimerization interface [polypeptide binding]; other site 339670016527 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 339670016528 classical (c) SDRs; Region: SDR_c; cd05233 339670016529 NAD(P) binding site [chemical binding]; other site 339670016530 active site 339670016531 Amidase; Region: Amidase; cl11426 339670016532 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 339670016533 Amidase; Region: Amidase; cl11426 339670016534 SnoaL-like domain; Region: SnoaL_4; pfam13577 339670016535 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670016536 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670016537 active site 339670016538 PAS domain; Region: PAS_9; pfam13426 339670016539 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 339670016540 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670016541 putative active site [active] 339670016542 heme pocket [chemical binding]; other site 339670016543 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670016544 dimer interface [polypeptide binding]; other site 339670016545 phosphorylation site [posttranslational modification] 339670016546 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670016547 ATP binding site [chemical binding]; other site 339670016548 Mg2+ binding site [ion binding]; other site 339670016549 G-X-G motif; other site 339670016550 Tautomerase enzyme; Region: Tautomerase; pfam01361 339670016551 active site 1 [active] 339670016552 dimer interface [polypeptide binding]; other site 339670016553 hexamer interface [polypeptide binding]; other site 339670016554 active site 2 [active] 339670016555 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 339670016556 active site 1 [active] 339670016557 dimer interface [polypeptide binding]; other site 339670016558 hexamer interface [polypeptide binding]; other site 339670016559 active site 2 [active] 339670016560 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 339670016561 inter-subunit interface; other site 339670016562 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 339670016563 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 339670016564 [2Fe-2S] cluster binding site [ion binding]; other site 339670016565 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 339670016566 putative alpha subunit interface [polypeptide binding]; other site 339670016567 putative active site [active] 339670016568 putative substrate binding site [chemical binding]; other site 339670016569 Fe binding site [ion binding]; other site 339670016570 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 339670016571 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016572 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 339670016573 substrate binding pocket [chemical binding]; other site 339670016574 dimerization interface [polypeptide binding]; other site 339670016575 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 339670016576 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 339670016577 FMN-binding pocket [chemical binding]; other site 339670016578 flavin binding motif; other site 339670016579 phosphate binding motif [ion binding]; other site 339670016580 beta-alpha-beta structure motif; other site 339670016581 NAD binding pocket [chemical binding]; other site 339670016582 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670016583 catalytic loop [active] 339670016584 iron binding site [ion binding]; other site 339670016585 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016586 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670016587 putative substrate translocation pore; other site 339670016588 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670016589 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670016590 trimer interface [polypeptide binding]; other site 339670016591 eyelet of channel; other site 339670016592 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016594 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670016595 dimerization interface [polypeptide binding]; other site 339670016596 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670016597 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 339670016598 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 339670016599 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 339670016600 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08269 339670016601 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670016602 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670016603 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016604 putative substrate translocation pore; other site 339670016605 PAAR motif; Region: PAAR_motif; pfam05488 339670016606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 339670016607 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 339670016608 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 339670016609 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 339670016610 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 339670016611 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 339670016612 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 339670016613 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670016614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 339670016615 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670016616 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 339670016617 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 339670016618 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670016619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670016620 dimer interface [polypeptide binding]; other site 339670016621 conserved gate region; other site 339670016622 putative PBP binding loops; other site 339670016623 ABC-ATPase subunit interface; other site 339670016624 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 339670016625 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670016626 dimer interface [polypeptide binding]; other site 339670016627 conserved gate region; other site 339670016628 putative PBP binding loops; other site 339670016629 ABC-ATPase subunit interface; other site 339670016630 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 339670016631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670016632 Walker A/P-loop; other site 339670016633 ATP binding site [chemical binding]; other site 339670016634 Q-loop/lid; other site 339670016635 ABC transporter signature motif; other site 339670016636 Walker B; other site 339670016637 D-loop; other site 339670016638 H-loop/switch region; other site 339670016639 TOBE domain; Region: TOBE_2; pfam08402 339670016640 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670016641 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670016642 dimerization interface [polypeptide binding]; other site 339670016643 putative Zn2+ binding site [ion binding]; other site 339670016644 putative DNA binding site [nucleotide binding]; other site 339670016645 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670016646 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 339670016647 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 339670016648 HAMP domain; Region: HAMP; pfam00672 339670016649 dimerization interface [polypeptide binding]; other site 339670016650 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670016651 dimer interface [polypeptide binding]; other site 339670016652 putative CheW interface [polypeptide binding]; other site 339670016653 Phosphoesterase family; Region: Phosphoesterase; pfam04185 339670016654 putative cyanate transporter; Provisional; Region: cynX; PRK09705 339670016655 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016656 putative substrate translocation pore; other site 339670016657 Helix-turn-helix domain; Region: HTH_31; pfam13560 339670016658 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 339670016659 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670016660 putative NAD(P) binding site [chemical binding]; other site 339670016661 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 339670016662 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 339670016663 putative NAD(P) binding site [chemical binding]; other site 339670016664 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670016665 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 339670016666 acyl-activating enzyme (AAE) consensus motif; other site 339670016667 AMP binding site [chemical binding]; other site 339670016668 thioester reductase domain; Region: Thioester-redct; TIGR01746 339670016669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670016670 NAD(P) binding site [chemical binding]; other site 339670016671 active site 339670016672 transcriptional regulator; Provisional; Region: PRK10632 339670016673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016674 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 339670016675 putative effector binding pocket; other site 339670016676 putative dimerization interface [polypeptide binding]; other site 339670016677 mercuric reductase; Validated; Region: PRK06370 339670016678 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670016679 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 339670016680 transcriptional activator TtdR; Provisional; Region: PRK09801 339670016681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016682 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670016683 dimerization interface [polypeptide binding]; other site 339670016684 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 339670016685 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 339670016686 putative active site pocket [active] 339670016687 metal binding site [ion binding]; metal-binding site 339670016688 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670016689 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 339670016690 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670016691 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 339670016692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670016693 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 339670016694 Domain of unknown function (DUF802); Region: DUF802; pfam05650 339670016695 Domain of unknown function (DUF802); Region: DUF802; pfam05650 339670016696 hypothetical protein; Provisional; Region: PRK09040 339670016697 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670016698 ligand binding site [chemical binding]; other site 339670016699 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 339670016700 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670016701 Predicted flavoprotein [General function prediction only]; Region: COG0431 339670016702 Probable transposase; Region: OrfB_IS605; pfam01385 339670016703 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670016704 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670016705 Phospholipid methyltransferase; Region: PEMT; cl17370 339670016706 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 339670016707 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 339670016708 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670016709 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 339670016710 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 339670016711 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 339670016712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670016713 glucose-1-dehydrogenase; Provisional; Region: PRK06947 339670016714 NAD(P) binding site [chemical binding]; other site 339670016715 active site 339670016716 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670016717 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670016718 Fungal fucose-specific lectin; Region: Fungal_lectin; pfam07938 339670016719 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016720 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016721 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670016722 putative effector binding pocket; other site 339670016723 dimerization interface [polypeptide binding]; other site 339670016724 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 339670016725 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670016726 putative C-terminal domain interface [polypeptide binding]; other site 339670016727 putative GSH binding site (G-site) [chemical binding]; other site 339670016728 putative dimer interface [polypeptide binding]; other site 339670016729 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 339670016730 putative N-terminal domain interface [polypeptide binding]; other site 339670016731 putative dimer interface [polypeptide binding]; other site 339670016732 putative substrate binding pocket (H-site) [chemical binding]; other site 339670016733 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 339670016734 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 339670016735 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 339670016736 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 339670016737 FAD binding pocket [chemical binding]; other site 339670016738 FAD binding motif [chemical binding]; other site 339670016739 phosphate binding motif [ion binding]; other site 339670016740 beta-alpha-beta structure motif; other site 339670016741 NAD binding pocket [chemical binding]; other site 339670016742 Heme binding pocket [chemical binding]; other site 339670016743 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670016744 catalytic loop [active] 339670016745 iron binding site [ion binding]; other site 339670016746 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 339670016747 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 339670016748 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670016749 N-terminal plug; other site 339670016750 ligand-binding site [chemical binding]; other site 339670016751 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 339670016752 Phosphotransferase enzyme family; Region: APH; pfam01636 339670016753 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 339670016754 active site 339670016755 ATP binding site [chemical binding]; other site 339670016756 substrate binding site [chemical binding]; other site 339670016757 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670016758 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 339670016759 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 339670016760 homodimer interface [polypeptide binding]; other site 339670016761 substrate-cofactor binding pocket; other site 339670016762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670016763 catalytic residue [active] 339670016764 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 339670016765 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670016766 S-adenosylmethionine binding site [chemical binding]; other site 339670016767 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 339670016768 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 339670016769 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 339670016770 hypothetical protein; Reviewed; Region: PRK09588 339670016771 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 339670016772 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 339670016773 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 339670016774 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670016775 Walker A motif; other site 339670016776 ATP binding site [chemical binding]; other site 339670016777 Walker B motif; other site 339670016778 arginine finger; other site 339670016779 Methyltransferase domain; Region: Methyltransf_23; pfam13489 339670016780 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670016781 S-adenosylmethionine binding site [chemical binding]; other site 339670016782 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670016783 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 339670016784 HipA-like N-terminal domain; Region: HipA_N; pfam07805 339670016785 HipA-like C-terminal domain; Region: HipA_C; pfam07804 339670016786 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016787 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 339670016788 putative effector binding pocket; other site 339670016789 putative dimerization interface [polypeptide binding]; other site 339670016790 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 339670016791 tartrate dehydrogenase; Region: TTC; TIGR02089 339670016792 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 339670016793 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016794 putative substrate translocation pore; other site 339670016795 haemagglutination activity domain; Region: Haemagg_act; pfam05860 339670016796 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 339670016797 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 339670016798 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 339670016799 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 339670016800 haemagglutination activity domain; Region: Haemagg_act; pfam05860 339670016801 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 339670016802 Transposase, Mutator family; Region: Transposase_mut; pfam00872 339670016803 Transposase, Mutator family; Region: Transposase_mut; pfam00872 339670016804 MULE transposase domain; Region: MULE; pfam10551 339670016805 argininosuccinate synthase; Validated; Region: PRK05370 339670016806 argininosuccinate synthase; Provisional; Region: PRK13820 339670016807 Predicted membrane protein [Function unknown]; Region: COG1289 339670016808 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 339670016809 Cache domain; Region: Cache_1; pfam02743 339670016810 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670016811 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670016812 metal binding site [ion binding]; metal-binding site 339670016813 active site 339670016814 I-site; other site 339670016815 lysine transporter; Provisional; Region: PRK10836 339670016816 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 339670016817 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 339670016818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016819 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 339670016820 dimerizarion interface [polypeptide binding]; other site 339670016821 CrgA pocket; other site 339670016822 substrate binding pocket [chemical binding]; other site 339670016823 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670016824 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670016825 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670016826 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 339670016827 homodimer interface [polypeptide binding]; other site 339670016828 active site 339670016829 TDP-binding site; other site 339670016830 acceptor substrate-binding pocket; other site 339670016831 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 339670016832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670016833 DNA-binding site [nucleotide binding]; DNA binding site 339670016834 UTRA domain; Region: UTRA; pfam07702 339670016835 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 339670016836 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670016837 substrate binding pocket [chemical binding]; other site 339670016838 membrane-bound complex binding site; other site 339670016839 hinge residues; other site 339670016840 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670016841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670016842 dimer interface [polypeptide binding]; other site 339670016843 conserved gate region; other site 339670016844 putative PBP binding loops; other site 339670016845 ABC-ATPase subunit interface; other site 339670016846 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670016847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670016848 dimer interface [polypeptide binding]; other site 339670016849 conserved gate region; other site 339670016850 putative PBP binding loops; other site 339670016851 ABC-ATPase subunit interface; other site 339670016852 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 339670016853 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670016854 Walker A/P-loop; other site 339670016855 ATP binding site [chemical binding]; other site 339670016856 Q-loop/lid; other site 339670016857 ABC transporter signature motif; other site 339670016858 Walker B; other site 339670016859 D-loop; other site 339670016860 H-loop/switch region; other site 339670016861 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 339670016862 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 339670016863 ligand binding site [chemical binding]; other site 339670016864 flexible hinge region; other site 339670016865 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 339670016866 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 339670016867 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 339670016868 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 339670016869 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670016870 ligand binding site [chemical binding]; other site 339670016871 Cache domain; Region: Cache_1; pfam02743 339670016872 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670016873 dimerization interface [polypeptide binding]; other site 339670016874 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 339670016875 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670016876 dimer interface [polypeptide binding]; other site 339670016877 putative CheW interface [polypeptide binding]; other site 339670016878 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 339670016879 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 339670016880 active site 339670016881 homodimer interface [polypeptide binding]; other site 339670016882 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 339670016883 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 339670016884 DXD motif; other site 339670016885 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 339670016886 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u2; cd10926 339670016887 putative active site [active] 339670016888 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 339670016889 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 339670016890 glutaminase active site [active] 339670016891 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 339670016892 dimer interface [polypeptide binding]; other site 339670016893 active site 339670016894 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 339670016895 dimer interface [polypeptide binding]; other site 339670016896 active site 339670016897 TIGR02594 family protein; Region: TIGR02594 339670016898 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 339670016899 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670016900 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670016901 putative substrate translocation pore; other site 339670016902 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 339670016903 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670016904 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670016905 Transcriptional regulators [Transcription]; Region: MarR; COG1846 339670016906 MarR family; Region: MarR_2; pfam12802 339670016907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016909 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670016910 putative effector binding pocket; other site 339670016911 dimerization interface [polypeptide binding]; other site 339670016912 Transcriptional regulators [Transcription]; Region: MarR; COG1846 339670016913 MarR family; Region: MarR_2; pfam12802 339670016914 Protein of unknown function (DUF521); Region: DUF521; pfam04412 339670016915 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 339670016916 substrate binding site [chemical binding]; other site 339670016917 ligand binding site [chemical binding]; other site 339670016918 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 339670016919 substrate binding site [chemical binding]; other site 339670016920 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670016921 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670016922 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670016923 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670016924 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 339670016925 active site 339670016926 FMN binding site [chemical binding]; other site 339670016927 2,4-decadienoyl-CoA binding site; other site 339670016928 catalytic residue [active] 339670016929 4Fe-4S cluster binding site [ion binding]; other site 339670016930 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 339670016931 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670016932 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 339670016933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670016934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016935 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 339670016936 putative substrate binding pocket [chemical binding]; other site 339670016937 putative dimerization interface [polypeptide binding]; other site 339670016938 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 339670016939 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670016940 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 339670016941 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 339670016942 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 339670016943 dimer interface [polypeptide binding]; other site 339670016944 active site 339670016945 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 339670016946 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 339670016947 octamer interface [polypeptide binding]; other site 339670016948 active site 339670016949 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 339670016950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670016951 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670016952 dimerization interface [polypeptide binding]; other site 339670016953 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670016954 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670016955 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 339670016956 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 339670016957 putative alpha subunit interface [polypeptide binding]; other site 339670016958 putative active site [active] 339670016959 putative substrate binding site [chemical binding]; other site 339670016960 Fe binding site [ion binding]; other site 339670016961 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 339670016962 inter-subunit interface; other site 339670016963 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 339670016964 [2Fe-2S] cluster binding site [ion binding]; other site 339670016965 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 339670016966 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670016967 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670016968 Protein of unknown function (DUF445); Region: DUF445; pfam04286 339670016969 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 339670016970 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 339670016971 acetolactate synthase; Reviewed; Region: PRK08322 339670016972 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 339670016973 PYR/PP interface [polypeptide binding]; other site 339670016974 dimer interface [polypeptide binding]; other site 339670016975 TPP binding site [chemical binding]; other site 339670016976 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 339670016977 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 339670016978 TPP-binding site [chemical binding]; other site 339670016979 dimer interface [polypeptide binding]; other site 339670016980 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 339670016981 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 339670016982 NAD(P) binding site [chemical binding]; other site 339670016983 catalytic residues [active] 339670016984 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 339670016985 Response regulator receiver domain; Region: Response_reg; pfam00072 339670016986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670016987 active site 339670016988 phosphorylation site [posttranslational modification] 339670016989 intermolecular recognition site; other site 339670016990 dimerization interface [polypeptide binding]; other site 339670016991 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670016992 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 339670016993 dimer interface [polypeptide binding]; other site 339670016994 phosphorylation site [posttranslational modification] 339670016995 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670016996 ATP binding site [chemical binding]; other site 339670016997 Mg2+ binding site [ion binding]; other site 339670016998 G-X-G motif; other site 339670016999 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 339670017000 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670017001 dimerization interface [polypeptide binding]; other site 339670017002 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 339670017003 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670017004 dimer interface [polypeptide binding]; other site 339670017005 putative CheW interface [polypeptide binding]; other site 339670017006 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 339670017007 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 339670017008 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 339670017009 Tetratricopeptide repeat; Region: TPR_16; pfam13432 339670017010 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 339670017011 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 339670017012 putative binding surface; other site 339670017013 active site 339670017014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670017015 ATP binding site [chemical binding]; other site 339670017016 Mg2+ binding site [ion binding]; other site 339670017017 G-X-G motif; other site 339670017018 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 339670017019 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017020 Response regulator receiver domain; Region: Response_reg; pfam00072 339670017021 active site 339670017022 phosphorylation site [posttranslational modification] 339670017023 intermolecular recognition site; other site 339670017024 dimerization interface [polypeptide binding]; other site 339670017025 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 339670017026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017027 active site 339670017028 phosphorylation site [posttranslational modification] 339670017029 intermolecular recognition site; other site 339670017030 CheB methylesterase; Region: CheB_methylest; pfam01339 339670017031 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 339670017032 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 339670017033 putative Cl- selectivity filter; other site 339670017034 putative pore gating glutamate residue; other site 339670017035 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 339670017036 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 339670017037 active site 339670017038 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 339670017039 Lumazine binding domain; Region: Lum_binding; pfam00677 339670017040 Lumazine binding domain; Region: Lum_binding; pfam00677 339670017041 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 339670017042 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 339670017043 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670017044 Walker A/P-loop; other site 339670017045 ATP binding site [chemical binding]; other site 339670017046 Q-loop/lid; other site 339670017047 ABC transporter signature motif; other site 339670017048 Walker B; other site 339670017049 D-loop; other site 339670017050 H-loop/switch region; other site 339670017051 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 339670017052 OsmC-like protein; Region: OsmC; pfam02566 339670017053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670017054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017055 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 339670017056 substrate binding pocket [chemical binding]; other site 339670017057 dimerization interface [polypeptide binding]; other site 339670017058 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670017059 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670017060 manganese transport protein MntH; Reviewed; Region: PRK00701 339670017061 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 339670017062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670017063 short chain dehydrogenase; Validated; Region: PRK07069 339670017064 NAD(P) binding site [chemical binding]; other site 339670017065 active site 339670017066 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 339670017067 Prostaglandin dehydrogenases; Region: PGDH; cd05288 339670017068 NAD(P) binding site [chemical binding]; other site 339670017069 substrate binding site [chemical binding]; other site 339670017070 dimer interface [polypeptide binding]; other site 339670017071 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 339670017072 Domain of unknown function DUF20; Region: UPF0118; pfam01594 339670017073 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 339670017074 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 339670017075 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 339670017076 generic binding surface I; other site 339670017077 generic binding surface II; other site 339670017078 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 339670017079 putative active site [active] 339670017080 putative catalytic site [active] 339670017081 putative Mg binding site IVb [ion binding]; other site 339670017082 putative phosphate binding site [ion binding]; other site 339670017083 putative DNA binding site [nucleotide binding]; other site 339670017084 putative Mg binding site IVa [ion binding]; other site 339670017085 YCII-related domain; Region: YCII; cl00999 339670017086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 339670017087 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 339670017088 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670017089 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 339670017090 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670017091 Rubrerythrin [Energy production and conversion]; Region: COG1592 339670017092 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 339670017093 binuclear metal center [ion binding]; other site 339670017094 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 339670017095 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 339670017096 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 339670017097 Transcriptional activator HlyU; Region: HlyU; cl02273 339670017098 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 339670017099 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 339670017100 Substrate binding site; other site 339670017101 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 339670017102 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 339670017103 Bacterial sugar transferase; Region: Bac_transf; pfam02397 339670017104 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 339670017105 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 339670017106 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 339670017107 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 339670017108 Low molecular weight phosphatase family; Region: LMWPc; cd00115 339670017109 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 339670017110 active site 339670017111 polysaccharide export protein Wza; Provisional; Region: PRK15078 339670017112 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 339670017113 SLBB domain; Region: SLBB; pfam10531 339670017114 SLBB domain; Region: SLBB; pfam10531 339670017115 tyrosine kinase; Provisional; Region: PRK11519 339670017116 Chain length determinant protein; Region: Wzz; pfam02706 339670017117 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 339670017118 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670017119 P-loop; other site 339670017120 Magnesium ion binding site [ion binding]; other site 339670017121 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 339670017122 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 339670017123 active site 339670017124 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670017125 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670017126 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 339670017127 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 339670017128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670017129 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 339670017130 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 339670017131 Predicted transcriptional regulators [Transcription]; Region: COG1733 339670017132 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 339670017133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670017134 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670017135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670017136 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 339670017137 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 339670017138 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 339670017139 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 339670017140 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 339670017141 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670017142 Walker A motif; other site 339670017143 ATP binding site [chemical binding]; other site 339670017144 Walker B motif; other site 339670017145 arginine finger; other site 339670017146 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670017147 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670017148 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670017149 substrate binding pocket [chemical binding]; other site 339670017150 membrane-bound complex binding site; other site 339670017151 hinge residues; other site 339670017152 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 339670017153 RES domain; Region: RES; smart00953 339670017154 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 339670017155 active site 339670017156 metal binding site [ion binding]; metal-binding site 339670017157 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 339670017158 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670017159 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 339670017160 putative C-terminal domain interface [polypeptide binding]; other site 339670017161 putative GSH binding site (G-site) [chemical binding]; other site 339670017162 putative dimer interface [polypeptide binding]; other site 339670017163 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 339670017164 putative N-terminal domain interface [polypeptide binding]; other site 339670017165 putative dimer interface [polypeptide binding]; other site 339670017166 putative substrate binding pocket (H-site) [chemical binding]; other site 339670017167 Methyltransferase domain; Region: Methyltransf_31; pfam13847 339670017168 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670017169 S-adenosylmethionine binding site [chemical binding]; other site 339670017170 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 339670017171 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 339670017172 active site 339670017173 catalytic site [active] 339670017174 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 339670017175 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 339670017176 thiamine phosphate binding site [chemical binding]; other site 339670017177 active site 339670017178 pyrophosphate binding site [ion binding]; other site 339670017179 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 339670017180 Transcriptional regulator [Transcription]; Region: IclR; COG1414 339670017181 Bacterial transcriptional regulator; Region: IclR; pfam01614 339670017182 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670017183 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670017184 substrate binding pocket [chemical binding]; other site 339670017185 membrane-bound complex binding site; other site 339670017186 hinge residues; other site 339670017187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670017188 dimer interface [polypeptide binding]; other site 339670017189 conserved gate region; other site 339670017190 putative PBP binding loops; other site 339670017191 ABC-ATPase subunit interface; other site 339670017192 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 339670017193 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670017194 Walker A/P-loop; other site 339670017195 ATP binding site [chemical binding]; other site 339670017196 Q-loop/lid; other site 339670017197 ABC transporter signature motif; other site 339670017198 Walker B; other site 339670017199 D-loop; other site 339670017200 H-loop/switch region; other site 339670017201 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 339670017202 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670017203 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670017204 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670017205 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 339670017206 NAD(P) binding site [chemical binding]; other site 339670017207 catalytic residues [active] 339670017208 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 339670017209 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 339670017210 catalytic Zn binding site [ion binding]; other site 339670017211 NAD binding site [chemical binding]; other site 339670017212 structural Zn binding site [ion binding]; other site 339670017213 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670017214 putative DNA binding site [nucleotide binding]; other site 339670017215 putative Zn2+ binding site [ion binding]; other site 339670017216 putative arabinose transporter; Provisional; Region: PRK03545 339670017217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670017218 putative substrate translocation pore; other site 339670017219 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 339670017220 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 339670017221 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670017222 motif II; other site 339670017223 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 339670017224 MgtC family; Region: MgtC; pfam02308 339670017225 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 339670017226 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 339670017227 putative active site [active] 339670017228 catalytic site [active] 339670017229 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 339670017230 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 339670017231 putative active site [active] 339670017232 putative active site [active] 339670017233 catalytic site [active] 339670017234 catalytic site [active] 339670017235 Uncharacterized conserved protein [Function unknown]; Region: COG0398 339670017236 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 339670017237 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 339670017238 putative catalytic site [active] 339670017239 putative metal binding site [ion binding]; other site 339670017240 putative phosphate binding site [ion binding]; other site 339670017241 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 339670017242 active site 339670017243 catalytic site [active] 339670017244 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 339670017245 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 339670017246 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 339670017247 active site 339670017248 homodimer interface [polypeptide binding]; other site 339670017249 catalytic site [active] 339670017250 acceptor binding site [chemical binding]; other site 339670017251 trehalose synthase; Region: treS_nterm; TIGR02456 339670017252 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 339670017253 active site 339670017254 catalytic site [active] 339670017255 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 339670017256 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 339670017257 glycogen branching enzyme; Provisional; Region: PRK05402 339670017258 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 339670017259 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 339670017260 active site 339670017261 catalytic site [active] 339670017262 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 339670017263 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 339670017264 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 339670017265 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 339670017266 active site 339670017267 catalytic site [active] 339670017268 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 339670017269 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 339670017270 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 339670017271 active site 339670017272 catalytic site [active] 339670017273 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 339670017274 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 339670017275 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 339670017276 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 339670017277 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 339670017278 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 339670017279 active site 339670017280 catalytic site [active] 339670017281 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 339670017282 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670017283 Coenzyme A binding pocket [chemical binding]; other site 339670017284 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 339670017285 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670017286 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 339670017287 arsenical-resistance protein; Region: acr3; TIGR00832 339670017288 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 339670017289 Low molecular weight phosphatase family; Region: LMWPc; cd00115 339670017290 active site 339670017291 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670017292 dimerization interface [polypeptide binding]; other site 339670017293 putative DNA binding site [nucleotide binding]; other site 339670017294 putative Zn2+ binding site [ion binding]; other site 339670017295 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 339670017296 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 339670017297 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 339670017298 intracellular protease, PfpI family; Region: PfpI; TIGR01382 339670017299 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 339670017300 proposed catalytic triad [active] 339670017301 conserved cys residue [active] 339670017302 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 339670017303 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 339670017304 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 339670017305 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 339670017306 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 339670017307 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 339670017308 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 339670017309 active site 339670017310 DNA binding site [nucleotide binding] 339670017311 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 339670017312 DNA binding site [nucleotide binding] 339670017313 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 339670017314 nucleotide binding site [chemical binding]; other site 339670017315 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 339670017316 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 339670017317 putative DNA binding site [nucleotide binding]; other site 339670017318 putative homodimer interface [polypeptide binding]; other site 339670017319 hydroperoxidase II; Provisional; Region: katE; PRK11249 339670017320 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 339670017321 tetramer interface [polypeptide binding]; other site 339670017322 heme binding pocket [chemical binding]; other site 339670017323 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 339670017324 domain interactions; other site 339670017325 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 339670017326 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 339670017327 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 339670017328 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 339670017329 FOG: CBS domain [General function prediction only]; Region: COG0517 339670017330 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 339670017331 PRC-barrel domain; Region: PRC; pfam05239 339670017332 citrate-proton symporter; Provisional; Region: PRK15075 339670017333 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670017334 putative substrate translocation pore; other site 339670017335 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 339670017336 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 339670017337 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670017338 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 339670017339 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670017340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017341 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 339670017342 putative dimerization interface [polypeptide binding]; other site 339670017343 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670017344 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017345 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 339670017346 putative effector binding pocket; other site 339670017347 putative dimerization interface [polypeptide binding]; other site 339670017348 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670017349 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670017350 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670017351 putative substrate translocation pore; other site 339670017352 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017353 Response regulator receiver domain; Region: Response_reg; pfam00072 339670017354 active site 339670017355 phosphorylation site [posttranslational modification] 339670017356 intermolecular recognition site; other site 339670017357 dimerization interface [polypeptide binding]; other site 339670017358 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 339670017359 Fe-S cluster binding site [ion binding]; other site 339670017360 active site 339670017361 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 339670017362 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 339670017363 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 339670017364 dinuclear metal binding motif [ion binding]; other site 339670017365 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 339670017366 short chain dehydrogenase; Provisional; Region: PRK06701 339670017367 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 339670017368 NAD binding site [chemical binding]; other site 339670017369 metal binding site [ion binding]; metal-binding site 339670017370 active site 339670017371 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 339670017372 short chain dehydrogenase; Provisional; Region: PRK07109 339670017373 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 339670017374 putative NAD(P) binding site [chemical binding]; other site 339670017375 active site 339670017376 BON domain; Region: BON; pfam04972 339670017377 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 339670017378 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 339670017379 putative ADP-binding pocket [chemical binding]; other site 339670017380 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670017381 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 339670017382 NAD binding site [chemical binding]; other site 339670017383 putative substrate binding site 2 [chemical binding]; other site 339670017384 putative substrate binding site 1 [chemical binding]; other site 339670017385 active site 339670017386 PAS fold; Region: PAS; pfam00989 339670017387 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670017388 putative active site [active] 339670017389 heme pocket [chemical binding]; other site 339670017390 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 339670017391 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670017392 putative active site [active] 339670017393 heme pocket [chemical binding]; other site 339670017394 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670017395 dimer interface [polypeptide binding]; other site 339670017396 phosphorylation site [posttranslational modification] 339670017397 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670017398 ATP binding site [chemical binding]; other site 339670017399 Mg2+ binding site [ion binding]; other site 339670017400 G-X-G motif; other site 339670017401 Response regulator receiver domain; Region: Response_reg; pfam00072 339670017402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017403 active site 339670017404 phosphorylation site [posttranslational modification] 339670017405 intermolecular recognition site; other site 339670017406 dimerization interface [polypeptide binding]; other site 339670017407 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 339670017408 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 339670017409 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 339670017410 Probable Catalytic site; other site 339670017411 metal-binding site 339670017412 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 339670017413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017414 active site 339670017415 phosphorylation site [posttranslational modification] 339670017416 intermolecular recognition site; other site 339670017417 dimerization interface [polypeptide binding]; other site 339670017418 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670017419 Walker A motif; other site 339670017420 ATP binding site [chemical binding]; other site 339670017421 Walker B motif; other site 339670017422 arginine finger; other site 339670017423 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670017424 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670017425 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 339670017426 Walker A motif; other site 339670017427 ATP binding site [chemical binding]; other site 339670017428 Walker B motif; other site 339670017429 arginine finger; other site 339670017430 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 339670017431 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670017432 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670017433 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 339670017434 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 339670017435 putative active site [active] 339670017436 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 339670017437 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 339670017438 active site 339670017439 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 339670017440 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 339670017441 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 339670017442 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 339670017443 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 339670017444 putative active site [active] 339670017445 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 339670017446 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670017447 active site 339670017448 motif I; other site 339670017449 motif II; other site 339670017450 short chain dehydrogenase; Provisional; Region: PRK07326 339670017451 classical (c) SDRs; Region: SDR_c; cd05233 339670017452 NAD(P) binding site [chemical binding]; other site 339670017453 active site 339670017454 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 339670017455 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 339670017456 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670017457 Walker A/P-loop; other site 339670017458 ATP binding site [chemical binding]; other site 339670017459 Q-loop/lid; other site 339670017460 ABC transporter signature motif; other site 339670017461 Walker B; other site 339670017462 D-loop; other site 339670017463 H-loop/switch region; other site 339670017464 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 339670017465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017466 active site 339670017467 phosphorylation site [posttranslational modification] 339670017468 intermolecular recognition site; other site 339670017469 dimerization interface [polypeptide binding]; other site 339670017470 BON domain; Region: BON; pfam04972 339670017471 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670017472 putative active site [active] 339670017473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670017474 heme pocket [chemical binding]; other site 339670017475 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670017476 dimer interface [polypeptide binding]; other site 339670017477 phosphorylation site [posttranslational modification] 339670017478 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670017479 ATP binding site [chemical binding]; other site 339670017480 Mg2+ binding site [ion binding]; other site 339670017481 G-X-G motif; other site 339670017482 Response regulator receiver domain; Region: Response_reg; pfam00072 339670017483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017484 active site 339670017485 phosphorylation site [posttranslational modification] 339670017486 intermolecular recognition site; other site 339670017487 dimerization interface [polypeptide binding]; other site 339670017488 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 339670017489 dimerization interface [polypeptide binding]; other site 339670017490 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 339670017491 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 339670017492 NAD binding site [chemical binding]; other site 339670017493 catalytic Zn binding site [ion binding]; other site 339670017494 structural Zn binding site [ion binding]; other site 339670017495 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 339670017496 [2Fe-2S] cluster binding site [ion binding]; other site 339670017497 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 339670017498 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670017499 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670017500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670017501 DNA-binding site [nucleotide binding]; DNA binding site 339670017502 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670017503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670017504 homodimer interface [polypeptide binding]; other site 339670017505 catalytic residue [active] 339670017506 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 339670017507 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 339670017508 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 339670017509 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 339670017510 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 339670017511 Clp amino terminal domain; Region: Clp_N; pfam02861 339670017512 Clp amino terminal domain; Region: Clp_N; pfam02861 339670017513 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670017514 Walker A motif; other site 339670017515 ATP binding site [chemical binding]; other site 339670017516 Walker B motif; other site 339670017517 arginine finger; other site 339670017518 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670017519 Walker A motif; other site 339670017520 ATP binding site [chemical binding]; other site 339670017521 Walker B motif; other site 339670017522 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 339670017523 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 339670017524 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 339670017525 putative molybdopterin cofactor binding site [chemical binding]; other site 339670017526 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 339670017527 putative molybdopterin cofactor binding site; other site 339670017528 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 339670017529 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 339670017530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670017531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017532 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 339670017533 putative substrate binding pocket [chemical binding]; other site 339670017534 dimerization interface [polypeptide binding]; other site 339670017535 acetylornithine deacetylase; Provisional; Region: PRK07522 339670017536 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 339670017537 metal binding site [ion binding]; metal-binding site 339670017538 putative dimer interface [polypeptide binding]; other site 339670017539 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 339670017540 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 339670017541 homotrimer interaction site [polypeptide binding]; other site 339670017542 putative active site [active] 339670017543 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 339670017544 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670017545 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 339670017546 putative active site [active] 339670017547 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 339670017548 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 339670017549 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 339670017550 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670017551 TPR motif; other site 339670017552 binding surface 339670017553 Sel1 repeat; Region: Sel1; cl02723 339670017554 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 339670017555 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 339670017556 active site 339670017557 HIGH motif; other site 339670017558 dimer interface [polypeptide binding]; other site 339670017559 KMSKS motif; other site 339670017560 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 339670017561 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 339670017562 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 339670017563 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 339670017564 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 339670017565 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 339670017566 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 339670017567 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 339670017568 dimer interface [polypeptide binding]; other site 339670017569 putative functional site; other site 339670017570 putative MPT binding site; other site 339670017571 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 339670017572 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670017573 FeS/SAM binding site; other site 339670017574 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 339670017575 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 339670017576 MoaE homodimer interface [polypeptide binding]; other site 339670017577 MoaD interaction [polypeptide binding]; other site 339670017578 active site residues [active] 339670017579 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 339670017580 MoaE interaction surface [polypeptide binding]; other site 339670017581 MoeB interaction surface [polypeptide binding]; other site 339670017582 thiocarboxylated glycine; other site 339670017583 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 339670017584 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 339670017585 C-terminal domain interface [polypeptide binding]; other site 339670017586 GSH binding site (G-site) [chemical binding]; other site 339670017587 dimer interface [polypeptide binding]; other site 339670017588 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 339670017589 N-terminal domain interface [polypeptide binding]; other site 339670017590 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 339670017591 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 339670017592 substrate binding site [chemical binding]; other site 339670017593 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 339670017594 substrate binding site [chemical binding]; other site 339670017595 ligand binding site [chemical binding]; other site 339670017596 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670017597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017598 The C-terminal substrate binding domain of LysR-type transcriptional regulator TrpI, which is involved in control of tryptophan synthesis, contains type 2 periplasmic binding fold; Region: PBP2_TrpI; cd08482 339670017599 putative dimerization interface [polypeptide binding]; other site 339670017600 putative substrate binding pocket [chemical binding]; other site 339670017601 LysE type translocator; Region: LysE; cl00565 339670017602 transaminase; Validated; Region: PRK07324 339670017603 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670017604 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670017605 homodimer interface [polypeptide binding]; other site 339670017606 catalytic residue [active] 339670017607 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670017608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670017609 DNA-binding site [nucleotide binding]; DNA binding site 339670017610 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670017611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670017612 homodimer interface [polypeptide binding]; other site 339670017613 catalytic residue [active] 339670017614 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 339670017615 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 339670017616 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670017617 Walker A motif; other site 339670017618 ATP binding site [chemical binding]; other site 339670017619 Walker B motif; other site 339670017620 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 339670017621 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 339670017622 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 339670017623 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 339670017624 active site 339670017625 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 339670017626 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 339670017627 active site 339670017628 ATP binding site [chemical binding]; other site 339670017629 substrate binding site [chemical binding]; other site 339670017630 activation loop (A-loop); other site 339670017631 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 339670017632 AAA domain; Region: AAA_11; pfam13086 339670017633 Part of AAA domain; Region: AAA_19; pfam13245 339670017634 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 339670017635 AAA domain; Region: AAA_12; pfam13087 339670017636 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 339670017637 TfoX N-terminal domain; Region: TfoX_N; pfam04993 339670017638 Phage integrase protein; Region: DUF3701; pfam12482 339670017639 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 339670017640 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 339670017641 Int/Topo IB signature motif; other site 339670017642 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 339670017643 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670017644 putative substrate translocation pore; other site 339670017645 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 339670017646 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 339670017647 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 339670017648 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 339670017649 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 339670017650 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 339670017651 4Fe-4S binding domain; Region: Fer4; cl02805 339670017652 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 339670017653 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 339670017654 [4Fe-4S] binding site [ion binding]; other site 339670017655 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 339670017656 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 339670017657 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 339670017658 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 339670017659 molybdopterin cofactor binding site; other site 339670017660 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670017661 Tetratricopeptide repeat; Region: TPR_12; pfam13424 339670017662 binding surface 339670017663 TPR motif; other site 339670017664 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 339670017665 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 339670017666 Ligand Binding Site [chemical binding]; other site 339670017667 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 339670017668 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670017669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670017670 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 339670017671 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670017672 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670017673 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670017674 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 339670017675 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670017676 short chain dehydrogenase; Provisional; Region: PRK06180 339670017677 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 339670017678 NADP binding site [chemical binding]; other site 339670017679 active site 339670017680 steroid binding site; other site 339670017681 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 339670017682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670017683 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670017684 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670017685 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 339670017686 active site 339670017687 catalytic residues [active] 339670017688 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670017689 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670017690 putative substrate translocation pore; other site 339670017691 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 339670017692 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 339670017693 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 339670017694 Putative zinc-finger; Region: zf-HC2; pfam13490 339670017695 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 339670017696 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670017697 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670017698 DNA binding residues [nucleotide binding] 339670017699 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 339670017700 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670017701 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 339670017702 acyltransferase PapA5; Provisional; Region: PRK09294 339670017703 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670017704 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 339670017705 short chain dehydrogenase; Provisional; Region: PRK06180 339670017706 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 339670017707 NADP binding site [chemical binding]; other site 339670017708 active site 339670017709 steroid binding site; other site 339670017710 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670017711 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 339670017712 phosphorylation site [posttranslational modification] 339670017713 dimer interface [polypeptide binding]; other site 339670017714 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670017715 ATP binding site [chemical binding]; other site 339670017716 Mg2+ binding site [ion binding]; other site 339670017717 G-X-G motif; other site 339670017718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017719 Response regulator receiver domain; Region: Response_reg; pfam00072 339670017720 active site 339670017721 phosphorylation site [posttranslational modification] 339670017722 intermolecular recognition site; other site 339670017723 dimerization interface [polypeptide binding]; other site 339670017724 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 339670017725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017726 active site 339670017727 phosphorylation site [posttranslational modification] 339670017728 intermolecular recognition site; other site 339670017729 dimerization interface [polypeptide binding]; other site 339670017730 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670017731 DNA binding residues [nucleotide binding] 339670017732 dimerization interface [polypeptide binding]; other site 339670017733 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 339670017734 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 339670017735 activation loop (A-loop); other site 339670017736 Predicted ATPase [General function prediction only]; Region: COG3899 339670017737 AAA ATPase domain; Region: AAA_16; pfam13191 339670017738 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 339670017739 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 339670017740 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670017741 dimer interface [polypeptide binding]; other site 339670017742 phosphorylation site [posttranslational modification] 339670017743 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670017744 ATP binding site [chemical binding]; other site 339670017745 Mg2+ binding site [ion binding]; other site 339670017746 G-X-G motif; other site 339670017747 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 339670017748 BON domain; Region: BON; pfam04972 339670017749 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 339670017750 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 339670017751 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670017752 dimer interface [polypeptide binding]; other site 339670017753 phosphorylation site [posttranslational modification] 339670017754 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670017755 ATP binding site [chemical binding]; other site 339670017756 Mg2+ binding site [ion binding]; other site 339670017757 G-X-G motif; other site 339670017758 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670017759 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 339670017760 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 339670017761 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670017762 catalytic loop [active] 339670017763 iron binding site [ion binding]; other site 339670017764 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670017765 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 339670017766 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670017767 benzoate transport; Region: 2A0115; TIGR00895 339670017768 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670017769 putative substrate translocation pore; other site 339670017770 pyruvate carboxylase; Reviewed; Region: PRK12999 339670017771 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 339670017772 ATP-grasp domain; Region: ATP-grasp_4; cl17255 339670017773 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 339670017774 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 339670017775 active site 339670017776 catalytic residues [active] 339670017777 metal binding site [ion binding]; metal-binding site 339670017778 homodimer binding site [polypeptide binding]; other site 339670017779 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 339670017780 carboxyltransferase (CT) interaction site; other site 339670017781 biotinylation site [posttranslational modification]; other site 339670017782 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670017783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017784 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670017785 dimerization interface [polypeptide binding]; other site 339670017786 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670017787 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 339670017788 NAD(P) binding site [chemical binding]; other site 339670017789 catalytic residues [active] 339670017790 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670017791 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670017792 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 339670017793 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 339670017794 inhibitor site; inhibition site 339670017795 active site 339670017796 dimer interface [polypeptide binding]; other site 339670017797 catalytic residue [active] 339670017798 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 339670017799 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 339670017800 dimer interface [polypeptide binding]; other site 339670017801 active site 339670017802 glycine-pyridoxal phosphate binding site [chemical binding]; other site 339670017803 folate binding site [chemical binding]; other site 339670017804 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 339670017805 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 339670017806 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 339670017807 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670017808 dimer interface [polypeptide binding]; other site 339670017809 conserved gate region; other site 339670017810 ABC-ATPase subunit interface; other site 339670017811 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 339670017812 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 339670017813 Walker A/P-loop; other site 339670017814 ATP binding site [chemical binding]; other site 339670017815 Q-loop/lid; other site 339670017816 ABC transporter signature motif; other site 339670017817 Walker B; other site 339670017818 D-loop; other site 339670017819 H-loop/switch region; other site 339670017820 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 339670017821 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670017822 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 339670017823 acyl-activating enzyme (AAE) consensus motif; other site 339670017824 AMP binding site [chemical binding]; other site 339670017825 active site 339670017826 CoA binding site [chemical binding]; other site 339670017827 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 339670017828 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 339670017829 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 339670017830 active site 339670017831 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 339670017832 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 339670017833 dimer interface [polypeptide binding]; other site 339670017834 active site 339670017835 CoA binding pocket [chemical binding]; other site 339670017836 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 339670017837 acyl-CoA synthetase; Validated; Region: PRK05850 339670017838 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 339670017839 acyl-activating enzyme (AAE) consensus motif; other site 339670017840 active site 339670017841 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670017842 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670017843 active site 339670017844 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670017845 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 339670017846 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 339670017847 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 339670017848 beta-ketothiolase; Provisional; Region: PRK09051 339670017849 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 339670017850 dimer interface [polypeptide binding]; other site 339670017851 active site 339670017852 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 339670017853 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670017854 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 339670017855 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 339670017856 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 339670017857 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 339670017858 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670017859 active site 339670017860 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 339670017861 LysR family transcriptional regulator; Provisional; Region: PRK14997 339670017862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017863 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670017864 putative effector binding pocket; other site 339670017865 dimerization interface [polypeptide binding]; other site 339670017866 short chain dehydrogenase; Provisional; Region: PRK06500 339670017867 classical (c) SDRs; Region: SDR_c; cd05233 339670017868 NAD(P) binding site [chemical binding]; other site 339670017869 active site 339670017870 Pirin-related protein [General function prediction only]; Region: COG1741 339670017871 Pirin; Region: Pirin; pfam02678 339670017872 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 339670017873 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 339670017874 ligand binding site [chemical binding]; other site 339670017875 homodimer interface [polypeptide binding]; other site 339670017876 NAD(P) binding site [chemical binding]; other site 339670017877 trimer interface B [polypeptide binding]; other site 339670017878 trimer interface A [polypeptide binding]; other site 339670017879 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 339670017880 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 339670017881 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 339670017882 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 339670017883 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 339670017884 NADP binding site [chemical binding]; other site 339670017885 putative substrate binding site [chemical binding]; other site 339670017886 active site 339670017887 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670017888 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670017889 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670017890 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 339670017891 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 339670017892 acyl-activating enzyme (AAE) consensus motif; other site 339670017893 putative AMP binding site [chemical binding]; other site 339670017894 putative active site [active] 339670017895 putative CoA binding site [chemical binding]; other site 339670017896 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670017897 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670017898 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670017899 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670017900 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670017901 dimerization interface [polypeptide binding]; other site 339670017902 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670017903 dimer interface [polypeptide binding]; other site 339670017904 phosphorylation site [posttranslational modification] 339670017905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670017906 ATP binding site [chemical binding]; other site 339670017907 Mg2+ binding site [ion binding]; other site 339670017908 G-X-G motif; other site 339670017909 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670017910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670017911 active site 339670017912 phosphorylation site [posttranslational modification] 339670017913 intermolecular recognition site; other site 339670017914 dimerization interface [polypeptide binding]; other site 339670017915 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670017916 DNA binding site [nucleotide binding] 339670017917 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670017918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017919 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670017920 putative effector binding pocket; other site 339670017921 dimerization interface [polypeptide binding]; other site 339670017922 NADH(P)-binding; Region: NAD_binding_10; pfam13460 339670017923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670017924 NAD(P) binding site [chemical binding]; other site 339670017925 active site 339670017926 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670017927 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670017928 DNA-binding site [nucleotide binding]; DNA binding site 339670017929 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670017930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670017931 homodimer interface [polypeptide binding]; other site 339670017932 catalytic residue [active] 339670017933 OsmC-like protein; Region: OsmC; cl00767 339670017934 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 339670017935 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670017936 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670017937 putative substrate translocation pore; other site 339670017938 OsmC-like protein; Region: OsmC; cl00767 339670017939 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 339670017940 Uncharacterized conserved protein [Function unknown]; Region: COG2128 339670017941 Cupin domain; Region: Cupin_2; pfam07883 339670017942 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 339670017943 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 339670017944 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 339670017945 DNA-binding site [nucleotide binding]; DNA binding site 339670017946 RNA-binding motif; other site 339670017947 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 339670017948 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 339670017949 Predicted membrane protein [Function unknown]; Region: COG2259 339670017950 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 339670017951 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 339670017952 active site 339670017953 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 339670017954 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 339670017955 Isochorismatase family; Region: Isochorismatase; pfam00857 339670017956 catalytic triad [active] 339670017957 dimer interface [polypeptide binding]; other site 339670017958 conserved cis-peptide bond; other site 339670017959 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 339670017960 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 339670017961 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017962 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670017963 dimerization interface [polypeptide binding]; other site 339670017964 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670017965 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670017966 DNA binding site [nucleotide binding] 339670017967 Predicted ATPase [General function prediction only]; Region: COG3903 339670017968 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670017969 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 339670017970 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670017971 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670017972 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670017973 Cytochrome c; Region: Cytochrom_C; pfam00034 339670017974 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670017975 Cytochrome c; Region: Cytochrom_C; pfam00034 339670017976 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670017977 Cytochrome c; Region: Cytochrom_C; pfam00034 339670017978 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 339670017979 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670017980 catalytic loop [active] 339670017981 iron binding site [ion binding]; other site 339670017982 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670017983 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 339670017984 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670017985 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 339670017986 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670017987 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670017988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670017989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670017990 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 339670017991 putative effector binding pocket; other site 339670017992 putative dimerization interface [polypeptide binding]; other site 339670017993 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 339670017994 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670017995 putative substrate translocation pore; other site 339670017996 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670017997 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 339670017998 FMN binding site [chemical binding]; other site 339670017999 active site 339670018000 substrate binding site [chemical binding]; other site 339670018001 catalytic residue [active] 339670018002 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 339670018003 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 339670018004 active site 339670018005 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670018006 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670018007 DNA binding site [nucleotide binding] 339670018008 AAA ATPase domain; Region: AAA_16; pfam13191 339670018009 Predicted ATPase [General function prediction only]; Region: COG3903 339670018010 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670018011 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670018012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670018013 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 339670018014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670018015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018016 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670018017 putative effector binding pocket; other site 339670018018 dimerization interface [polypeptide binding]; other site 339670018019 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 339670018020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 339670018021 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 339670018022 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 339670018023 active site 339670018024 nucleophile elbow; other site 339670018025 Double zinc ribbon; Region: DZR; pfam12773 339670018026 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 339670018027 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 339670018028 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 339670018029 cyclase homology domain; Region: CHD; cd07302 339670018030 nucleotidyl binding site; other site 339670018031 metal binding site [ion binding]; metal-binding site 339670018032 dimer interface [polypeptide binding]; other site 339670018033 AAA ATPase domain; Region: AAA_16; pfam13191 339670018034 Predicted ATPase [General function prediction only]; Region: COG3903 339670018035 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 339670018036 binding surface 339670018037 TPR motif; other site 339670018038 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 339670018039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670018040 DNA-binding site [nucleotide binding]; DNA binding site 339670018041 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 339670018042 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 339670018043 active sites [active] 339670018044 tetramer interface [polypeptide binding]; other site 339670018045 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 339670018046 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670018047 Walker A/P-loop; other site 339670018048 ATP binding site [chemical binding]; other site 339670018049 Q-loop/lid; other site 339670018050 ABC transporter signature motif; other site 339670018051 Walker B; other site 339670018052 D-loop; other site 339670018053 H-loop/switch region; other site 339670018054 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670018055 dimer interface [polypeptide binding]; other site 339670018056 conserved gate region; other site 339670018057 putative PBP binding loops; other site 339670018058 ABC-ATPase subunit interface; other site 339670018059 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 339670018060 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670018061 dimer interface [polypeptide binding]; other site 339670018062 conserved gate region; other site 339670018063 putative PBP binding loops; other site 339670018064 ABC-ATPase subunit interface; other site 339670018065 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 339670018066 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670018067 substrate binding pocket [chemical binding]; other site 339670018068 membrane-bound complex binding site; other site 339670018069 hinge residues; other site 339670018070 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 339670018071 pseudoazurin; Region: pseudoazurin; TIGR02375 339670018072 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 339670018073 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 339670018074 heme binding site [chemical binding]; other site 339670018075 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 339670018076 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 339670018077 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 339670018078 metal binding site [ion binding]; metal-binding site 339670018079 putative dimer interface [polypeptide binding]; other site 339670018080 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 339670018081 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670018082 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 339670018083 NAD(P) binding site [chemical binding]; other site 339670018084 catalytic residues [active] 339670018085 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 339670018086 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 339670018087 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670018088 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018089 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670018090 dimerization interface [polypeptide binding]; other site 339670018091 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 339670018092 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 339670018093 Bacterial type III secretion protein (HrpB7); Region: HrpB7; pfam09486 339670018094 type III secretion system ATPase; Provisional; Region: PRK09099 339670018095 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 339670018096 Walker A motif/ATP binding site; other site 339670018097 Walker B motif; other site 339670018098 type III secretion system protein HrpB; Validated; Region: PRK09098 339670018099 Flagellar assembly protein FliH; Region: FliH; pfam02108 339670018100 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 339670018101 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 339670018102 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 339670018103 Bacterial type III secretion protein (HrpB2); Region: HrpB2; pfam09487 339670018104 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 339670018105 type III secretion system protein HrcU; Validated; Region: PRK09108 339670018106 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 339670018107 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 339670018108 FHIPEP family; Region: FHIPEP; pfam00771 339670018109 Type III secretion protein (HpaP); Region: HpaP; pfam09483 339670018110 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 339670018111 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 339670018112 type III secretion system protein YscR; Provisional; Region: PRK12797 339670018113 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 339670018114 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 339670018115 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 339670018116 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670018117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670018118 active site 339670018119 phosphorylation site [posttranslational modification] 339670018120 intermolecular recognition site; other site 339670018121 dimerization interface [polypeptide binding]; other site 339670018122 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670018123 DNA binding site [nucleotide binding] 339670018124 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 339670018125 PAS domain; Region: PAS; smart00091 339670018126 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670018127 ATP binding site [chemical binding]; other site 339670018128 Mg2+ binding site [ion binding]; other site 339670018129 G-X-G motif; other site 339670018130 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 339670018131 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 339670018132 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 339670018133 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 339670018134 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 339670018135 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 339670018136 Walker A motif; other site 339670018137 ATP binding site [chemical binding]; other site 339670018138 Walker B motif; other site 339670018139 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 339670018140 PilS N terminal; Region: PilS; pfam08805 339670018141 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670018142 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670018143 Type II/IV secretion system protein; Region: T2SE; pfam00437 339670018144 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 339670018145 Walker A motif; other site 339670018146 ATP binding site [chemical binding]; other site 339670018147 Walker B motif; other site 339670018148 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 339670018149 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 339670018150 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 339670018151 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 339670018152 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 339670018153 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670018154 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670018155 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 339670018156 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 339670018157 N-acetyl-D-glucosamine binding site [chemical binding]; other site 339670018158 catalytic residue [active] 339670018159 Integrase core domain; Region: rve_3; cl15866 339670018160 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 339670018161 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 339670018162 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 339670018163 active site 339670018164 substrate binding site [chemical binding]; other site 339670018165 cosubstrate binding site; other site 339670018166 catalytic site [active] 339670018167 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 339670018168 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 339670018169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670018170 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018171 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670018172 dimerization interface [polypeptide binding]; other site 339670018173 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 339670018174 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 339670018175 metal binding site [ion binding]; metal-binding site 339670018176 putative dimer interface [polypeptide binding]; other site 339670018177 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670018178 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670018179 trimer interface [polypeptide binding]; other site 339670018180 eyelet of channel; other site 339670018181 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670018182 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670018183 putative substrate translocation pore; other site 339670018184 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 339670018185 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 339670018186 FMN-binding pocket [chemical binding]; other site 339670018187 flavin binding motif; other site 339670018188 phosphate binding motif [ion binding]; other site 339670018189 beta-alpha-beta structure motif; other site 339670018190 NAD binding pocket [chemical binding]; other site 339670018191 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670018192 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 339670018193 catalytic loop [active] 339670018194 iron binding site [ion binding]; other site 339670018195 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 339670018196 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 339670018197 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 339670018198 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670018199 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 339670018200 alpha subunit interface [polypeptide binding]; other site 339670018201 active site 339670018202 substrate binding site [chemical binding]; other site 339670018203 Fe binding site [ion binding]; other site 339670018204 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 339670018205 allantoate amidohydrolase; Reviewed; Region: PRK12892 339670018206 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 339670018207 active site 339670018208 metal binding site [ion binding]; metal-binding site 339670018209 dimer interface [polypeptide binding]; other site 339670018210 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 339670018211 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 339670018212 heterodimer interface [polypeptide binding]; other site 339670018213 active site 339670018214 FMN binding site [chemical binding]; other site 339670018215 homodimer interface [polypeptide binding]; other site 339670018216 substrate binding site [chemical binding]; other site 339670018217 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 339670018218 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 339670018219 FAD binding pocket [chemical binding]; other site 339670018220 FAD binding motif [chemical binding]; other site 339670018221 phosphate binding motif [ion binding]; other site 339670018222 beta-alpha-beta structure motif; other site 339670018223 NAD binding pocket [chemical binding]; other site 339670018224 Iron coordination center [ion binding]; other site 339670018225 benzoate transport; Region: 2A0115; TIGR00895 339670018226 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670018227 putative substrate translocation pore; other site 339670018228 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670018229 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670018230 trimer interface [polypeptide binding]; other site 339670018231 eyelet of channel; other site 339670018232 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 339670018233 Autoinducer binding domain; Region: Autoind_bind; pfam03472 339670018234 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670018235 DNA binding residues [nucleotide binding] 339670018236 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 339670018237 GIY-YIG motif/motif A; other site 339670018238 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 339670018239 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 339670018240 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 339670018241 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 339670018242 shikimate binding site; other site 339670018243 NAD(P) binding site [chemical binding]; other site 339670018244 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 339670018245 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 339670018246 NAD(P) binding site [chemical binding]; other site 339670018247 Condensation domain; Region: Condensation; pfam00668 339670018248 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670018249 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670018250 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670018251 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670018252 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 339670018253 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 339670018254 active site 339670018255 FMN binding site [chemical binding]; other site 339670018256 substrate binding site [chemical binding]; other site 339670018257 homotetramer interface [polypeptide binding]; other site 339670018258 catalytic residue [active] 339670018259 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018260 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018261 active site 339670018262 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 339670018263 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 339670018264 KR domain; Region: KR; pfam08659 339670018265 putative NADP binding site [chemical binding]; other site 339670018266 active site 339670018267 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018268 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018269 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018270 active site 339670018271 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018272 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018273 active site 339670018274 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 339670018275 Methyltransferase domain; Region: Methyltransf_23; pfam13489 339670018276 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670018277 S-adenosylmethionine binding site [chemical binding]; other site 339670018278 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 339670018279 KR domain; Region: KR; pfam08659 339670018280 putative NADP binding site [chemical binding]; other site 339670018281 active site 339670018282 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018283 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018284 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018285 active site 339670018286 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 339670018287 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018288 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018289 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018290 active site 339670018291 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 339670018292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670018293 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 339670018294 NAD(P) binding site [chemical binding]; other site 339670018295 active site 339670018296 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018297 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018298 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018299 active site 339670018300 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 339670018301 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 339670018302 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 339670018303 putative NADP binding site [chemical binding]; other site 339670018304 active site 339670018305 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018306 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018307 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018308 active site 339670018309 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 339670018310 Methyltransferase domain; Region: Methyltransf_31; pfam13847 339670018311 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670018312 S-adenosylmethionine binding site [chemical binding]; other site 339670018313 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 339670018314 KR domain; Region: KR; pfam08659 339670018315 NADP binding site [chemical binding]; other site 339670018316 active site 339670018317 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670018319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670018320 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 339670018321 NAD(P) binding site [chemical binding]; other site 339670018322 active site 339670018323 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018324 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018325 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018326 active site 339670018327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670018328 NAD(P) binding site [chemical binding]; other site 339670018329 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 339670018330 active site 339670018331 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018332 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018333 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018334 active site 339670018335 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 339670018336 KR domain; Region: KR; pfam08659 339670018337 NADP binding site [chemical binding]; other site 339670018338 active site 339670018339 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018340 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018341 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018342 active site 339670018343 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 339670018344 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670018345 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670018346 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670018347 active site 339670018348 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 339670018349 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 339670018350 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 339670018351 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 339670018352 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 339670018353 putative NADP binding site [chemical binding]; other site 339670018354 active site 339670018355 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670018356 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 339670018357 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 339670018358 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 339670018359 Dock Homology Region 2, a GEF domain, of Dedicator of Cytokinesis proteins; Region: DHR2_DOCK; cl06123 339670018360 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 339670018361 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 339670018362 Cupin-like domain; Region: Cupin_8; pfam13621 339670018363 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 339670018364 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 339670018365 Trp docking motif [polypeptide binding]; other site 339670018366 putative active site [active] 339670018367 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 339670018368 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 339670018369 cation binding site [ion binding]; other site 339670018370 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670018371 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 339670018372 Beta-lactamase; Region: Beta-lactamase; pfam00144 339670018373 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 339670018374 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670018375 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670018376 trimer interface [polypeptide binding]; other site 339670018377 eyelet of channel; other site 339670018378 BON domain; Region: BON; pfam04972 339670018379 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 339670018380 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 339670018381 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670018382 D-galactonate transporter; Region: 2A0114; TIGR00893 339670018383 putative substrate translocation pore; other site 339670018384 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670018385 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 339670018386 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 339670018387 active site 339670018388 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 339670018389 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 339670018390 acyl-activating enzyme (AAE) consensus motif; other site 339670018391 putative AMP binding site [chemical binding]; other site 339670018392 putative active site [active] 339670018393 putative CoA binding site [chemical binding]; other site 339670018394 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670018395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018396 LysR substrate binding domain; Region: LysR_substrate; pfam03466 339670018397 dimerization interface [polypeptide binding]; other site 339670018398 FOG: CBS domain [General function prediction only]; Region: COG0517 339670018399 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 339670018400 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 339670018401 PAS domain; Region: PAS_9; pfam13426 339670018402 putative active site [active] 339670018403 heme pocket [chemical binding]; other site 339670018404 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670018405 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670018406 metal binding site [ion binding]; metal-binding site 339670018407 active site 339670018408 I-site; other site 339670018409 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670018410 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 339670018411 active site clefts [active] 339670018412 zinc binding site [ion binding]; other site 339670018413 dimer interface [polypeptide binding]; other site 339670018414 cyanate hydratase; Validated; Region: PRK02866 339670018415 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 339670018416 oligomer interface [polypeptide binding]; other site 339670018417 active site 339670018418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 339670018419 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670018420 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 339670018421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018422 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 339670018423 dimerization interface [polypeptide binding]; other site 339670018424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 339670018425 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670018426 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670018427 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 339670018428 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670018429 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 339670018430 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670018431 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670018432 methionine sulfoxide reductase B; Provisional; Region: PRK00222 339670018433 SelR domain; Region: SelR; pfam01641 339670018434 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 339670018435 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 339670018436 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 339670018437 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 339670018438 catalytic residues [active] 339670018439 methionine sulfoxide reductase A; Provisional; Region: PRK13014 339670018440 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670018441 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 339670018442 [2Fe-2S] cluster binding site [ion binding]; other site 339670018443 phenylhydantoinase; Validated; Region: PRK08323 339670018444 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 339670018445 tetramer interface [polypeptide binding]; other site 339670018446 active site 339670018447 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 339670018448 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 339670018449 Na binding site [ion binding]; other site 339670018450 putative substrate binding site [chemical binding]; other site 339670018451 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 339670018452 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 339670018453 homodimer interface [polypeptide binding]; other site 339670018454 active site 339670018455 FMN binding site [chemical binding]; other site 339670018456 substrate binding site [chemical binding]; other site 339670018457 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 339670018458 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 339670018459 allantoate amidohydrolase; Reviewed; Region: PRK09290 339670018460 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 339670018461 active site 339670018462 metal binding site [ion binding]; metal-binding site 339670018463 dimer interface [polypeptide binding]; other site 339670018464 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 339670018465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670018466 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 339670018467 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 339670018468 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 339670018469 dimer interface [polypeptide binding]; other site 339670018470 active site 339670018471 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 339670018472 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 339670018473 NAD binding site [chemical binding]; other site 339670018474 homodimer interface [polypeptide binding]; other site 339670018475 homotetramer interface [polypeptide binding]; other site 339670018476 active site 339670018477 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 339670018478 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 339670018479 active site 339670018480 acyl-activating enzyme (AAE) consensus motif; other site 339670018481 putative CoA binding site [chemical binding]; other site 339670018482 AMP binding site [chemical binding]; other site 339670018483 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670018484 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670018485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670018486 Protein of unknown function (DUF429); Region: DUF429; pfam04250 339670018487 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 339670018488 HD domain; Region: HD_4; pfam13328 339670018489 P-loop containing region of AAA domain; Region: AAA_29; cl17516 339670018490 AAA domain; Region: AAA_23; pfam13476 339670018491 AAA domain; Region: AAA_27; pfam13514 339670018492 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 339670018493 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 339670018494 active site 339670018495 metal binding site [ion binding]; metal-binding site 339670018496 DNA binding site [nucleotide binding] 339670018497 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 339670018498 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 339670018499 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670018500 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 339670018501 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 339670018502 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670018503 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670018504 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 339670018505 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670018506 dimer interface [polypeptide binding]; other site 339670018507 phosphorylation site [posttranslational modification] 339670018508 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670018509 ATP binding site [chemical binding]; other site 339670018510 Mg2+ binding site [ion binding]; other site 339670018511 G-X-G motif; other site 339670018512 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 339670018513 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670018514 active site 339670018515 phosphorylation site [posttranslational modification] 339670018516 intermolecular recognition site; other site 339670018517 dimerization interface [polypeptide binding]; other site 339670018518 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670018519 DNA binding site [nucleotide binding] 339670018520 RES domain; Region: RES; pfam08808 339670018521 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 339670018522 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 339670018523 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 339670018524 Zn2+ binding site [ion binding]; other site 339670018525 Mg2+ binding site [ion binding]; other site 339670018526 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670018527 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 339670018528 conserved cys residue [active] 339670018529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670018530 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670018531 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670018532 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 339670018533 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 339670018534 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670018535 substrate binding pocket [chemical binding]; other site 339670018536 membrane-bound complex binding site; other site 339670018537 hinge residues; other site 339670018538 transcriptional regulator; Provisional; Region: PRK10632 339670018539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018540 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670018541 putative effector binding pocket; other site 339670018542 dimerization interface [polypeptide binding]; other site 339670018543 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 339670018544 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 339670018545 GDP-binding site [chemical binding]; other site 339670018546 ACT binding site; other site 339670018547 IMP binding site; other site 339670018548 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670018549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018550 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670018551 dimerization interface [polypeptide binding]; other site 339670018552 substrate binding pocket [chemical binding]; other site 339670018553 Initiator Replication protein; Region: Rep_3; pfam01051 339670018554 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 339670018555 ParB-like nuclease domain; Region: ParB; smart00470 339670018556 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 339670018557 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 339670018558 P-loop; other site 339670018559 Magnesium ion binding site [ion binding]; other site 339670018560 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 339670018561 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 339670018562 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670018563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670018564 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 339670018565 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 339670018566 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670018567 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 339670018568 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 339670018569 ProQ/FINO family; Region: ProQ; pfam04352 339670018570 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 339670018571 EamA-like transporter family; Region: EamA; pfam00892 339670018572 EamA-like transporter family; Region: EamA; pfam00892 339670018573 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 339670018574 dimer interface [polypeptide binding]; other site 339670018575 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670018576 ligand binding site [chemical binding]; other site 339670018577 TOBE domain; Region: TOBE; cl01440 339670018578 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 339670018579 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670018580 Transcriptional regulator; Region: Rrf2; cl17282 339670018581 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 339670018582 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670018583 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670018584 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 339670018585 Fusaric acid resistance protein family; Region: FUSC; pfam04632 339670018586 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 339670018587 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 339670018588 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 339670018589 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670018590 DNA-binding site [nucleotide binding]; DNA binding site 339670018591 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670018592 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670018593 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670018594 homodimer interface [polypeptide binding]; other site 339670018595 catalytic residue [active] 339670018596 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 339670018597 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 339670018598 tetramer interface [polypeptide binding]; other site 339670018599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670018600 catalytic residue [active] 339670018601 ectoine utilization protein EutC; Validated; Region: PRK08291 339670018602 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 339670018603 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 339670018604 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 339670018605 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 339670018606 active site 339670018607 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 339670018608 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 339670018609 putative active site [active] 339670018610 Zn binding site [ion binding]; other site 339670018611 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670018612 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670018613 putative DNA binding site [nucleotide binding]; other site 339670018614 putative Zn2+ binding site [ion binding]; other site 339670018615 AsnC family; Region: AsnC_trans_reg; pfam01037 339670018616 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670018617 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 339670018618 tetramerization interface [polypeptide binding]; other site 339670018619 NAD(P) binding site [chemical binding]; other site 339670018620 catalytic residues [active] 339670018621 hypothetical protein; Provisional; Region: PRK07482 339670018622 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670018623 inhibitor-cofactor binding pocket; inhibition site 339670018624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670018625 catalytic residue [active] 339670018626 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 339670018627 acyl-CoA synthetase; Validated; Region: PRK08162 339670018628 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 339670018629 acyl-activating enzyme (AAE) consensus motif; other site 339670018630 putative active site [active] 339670018631 AMP binding site [chemical binding]; other site 339670018632 putative CoA binding site [chemical binding]; other site 339670018633 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 339670018634 putative FMN binding site [chemical binding]; other site 339670018635 benzoate transport; Region: 2A0115; TIGR00895 339670018636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670018637 putative substrate translocation pore; other site 339670018638 Tannase and feruloyl esterase; Region: Tannase; pfam07519 339670018639 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670018640 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670018641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670018642 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670018643 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670018644 putative substrate translocation pore; other site 339670018645 dihydroxyacetone kinase; Provisional; Region: PRK14479 339670018646 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 339670018647 DAK2 domain; Region: Dak2; pfam02734 339670018648 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 339670018649 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670018650 Walker A motif; other site 339670018651 ATP binding site [chemical binding]; other site 339670018652 Walker B motif; other site 339670018653 arginine finger; other site 339670018654 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670018655 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670018656 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 339670018657 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 339670018658 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 339670018659 active site 339670018660 dimer interface [polypeptide binding]; other site 339670018661 non-prolyl cis peptide bond; other site 339670018662 insertion regions; other site 339670018663 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670018664 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670018665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018666 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670018667 dimerization interface [polypeptide binding]; other site 339670018668 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670018669 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018670 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670018671 dimerization interface [polypeptide binding]; other site 339670018672 substrate binding pocket [chemical binding]; other site 339670018673 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 339670018674 FAD binding domain; Region: FAD_binding_4; pfam01565 339670018675 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 339670018676 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 339670018677 Autoinducer binding domain; Region: Autoind_bind; pfam03472 339670018678 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670018679 DNA binding residues [nucleotide binding] 339670018680 dimerization interface [polypeptide binding]; other site 339670018681 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 339670018682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670018683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018684 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670018685 dimerization interface [polypeptide binding]; other site 339670018686 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 339670018687 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 339670018688 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 339670018689 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670018690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670018691 homodimer interface [polypeptide binding]; other site 339670018692 catalytic residue [active] 339670018693 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 339670018694 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 339670018695 active site 339670018696 Zn binding site [ion binding]; other site 339670018697 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670018698 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 339670018699 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670018700 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 339670018701 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 339670018702 acyl-activating enzyme (AAE) consensus motif; other site 339670018703 AMP binding site [chemical binding]; other site 339670018704 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670018705 Autoinducer synthetase; Region: Autoind_synth; cl17404 339670018706 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 339670018707 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 339670018708 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 339670018709 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 339670018710 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 339670018711 dimerization interface [polypeptide binding]; other site 339670018712 ligand binding site [chemical binding]; other site 339670018713 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 339670018714 EamA-like transporter family; Region: EamA; pfam00892 339670018715 EamA-like transporter family; Region: EamA; pfam00892 339670018716 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670018717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018718 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 339670018719 dimerization interface [polypeptide binding]; other site 339670018720 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670018721 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670018722 trimer interface [polypeptide binding]; other site 339670018723 eyelet of channel; other site 339670018724 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 339670018725 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670018726 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670018727 DNA binding residues [nucleotide binding] 339670018728 dimerization interface [polypeptide binding]; other site 339670018729 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 339670018730 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 339670018731 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 339670018732 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 339670018733 Walker A/P-loop; other site 339670018734 ATP binding site [chemical binding]; other site 339670018735 Q-loop/lid; other site 339670018736 ABC transporter signature motif; other site 339670018737 Walker B; other site 339670018738 D-loop; other site 339670018739 H-loop/switch region; other site 339670018740 TOBE domain; Region: TOBE_2; pfam08402 339670018741 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670018742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670018743 dimer interface [polypeptide binding]; other site 339670018744 conserved gate region; other site 339670018745 putative PBP binding loops; other site 339670018746 ABC-ATPase subunit interface; other site 339670018747 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 339670018748 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670018749 dimer interface [polypeptide binding]; other site 339670018750 conserved gate region; other site 339670018751 putative PBP binding loops; other site 339670018752 ABC-ATPase subunit interface; other site 339670018753 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 339670018754 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 339670018755 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670018756 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670018757 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 339670018758 amidase; Provisional; Region: PRK07487 339670018759 Amidase; Region: Amidase; cl11426 339670018760 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 339670018761 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 339670018762 NAD(P) binding site [chemical binding]; other site 339670018763 catalytic residues [active] 339670018764 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 339670018765 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 339670018766 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 339670018767 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 339670018768 Pirin-related protein [General function prediction only]; Region: COG1741 339670018769 Pirin; Region: Pirin; pfam02678 339670018770 LysR family transcriptional regulator; Provisional; Region: PRK14997 339670018771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018772 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670018773 putative effector binding pocket; other site 339670018774 dimerization interface [polypeptide binding]; other site 339670018775 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 339670018776 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 339670018777 MEKHLA domain; Region: MEKHLA; pfam08670 339670018778 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 339670018779 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 339670018780 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 339670018781 Predicted membrane protein [Function unknown]; Region: COG2259 339670018782 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 339670018783 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 339670018784 NADP binding site [chemical binding]; other site 339670018785 active site 339670018786 putative substrate binding site [chemical binding]; other site 339670018787 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 339670018788 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 339670018789 putative active site [active] 339670018790 putative NTP binding site [chemical binding]; other site 339670018791 putative nucleic acid binding site [nucleotide binding]; other site 339670018792 H-NS histone family; Region: Histone_HNS; pfam00816 339670018793 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 339670018794 benzoate transport; Region: 2A0115; TIGR00895 339670018795 Uncharacterized conserved protein [Function unknown]; Region: COG3268 339670018796 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 339670018797 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670018798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670018799 amino acid transporter; Region: 2A0306; TIGR00909 339670018800 hypothetical protein; Provisional; Region: PRK06541 339670018801 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670018802 inhibitor-cofactor binding pocket; inhibition site 339670018803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670018804 catalytic residue [active] 339670018805 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 339670018806 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670018807 NAD binding site [chemical binding]; other site 339670018808 catalytic residues [active] 339670018809 Uncharacterized conserved protein [Function unknown]; Region: COG5476 339670018810 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 339670018811 MlrC C-terminus; Region: MlrC_C; pfam07171 339670018812 Uncharacterized conserved protein [Function unknown]; Region: COG3391 339670018813 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670018814 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 339670018815 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 339670018816 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 339670018817 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 339670018818 Active site cavity [active] 339670018819 catalytic acid [active] 339670018820 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670018821 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670018822 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 339670018823 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 339670018824 inhibitor site; inhibition site 339670018825 active site 339670018826 dimer interface [polypeptide binding]; other site 339670018827 catalytic residue [active] 339670018828 metabolite-proton symporter; Region: 2A0106; TIGR00883 339670018829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670018830 putative substrate translocation pore; other site 339670018831 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670018832 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670018833 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670018834 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670018835 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 339670018836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670018837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018838 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670018839 putative effector binding pocket; other site 339670018840 dimerization interface [polypeptide binding]; other site 339670018841 NmrA (a transcriptional regulator) and triphenylmethane reductase (TMR) like proteins, subgroup 1, atypical (a) SDRs; Region: NmrA_TMR_like_1_SDR_a; cd05231 339670018842 NmrA-like family; Region: NmrA; pfam05368 339670018843 putative NADP binding site [chemical binding]; other site 339670018844 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 339670018845 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 339670018846 active site 339670018847 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 339670018848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670018849 NAD(P) binding site [chemical binding]; other site 339670018850 active site 339670018851 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 339670018852 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 339670018853 DNA binding residues [nucleotide binding] 339670018854 dimer interface [polypeptide binding]; other site 339670018855 metal binding site [ion binding]; metal-binding site 339670018856 Transcriptional regulators [Transcription]; Region: GntR; COG1802 339670018857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670018858 DNA-binding site [nucleotide binding]; DNA binding site 339670018859 FCD domain; Region: FCD; pfam07729 339670018860 chaperone protein DnaJ; Provisional; Region: PRK14282 339670018861 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 339670018862 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 339670018863 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 339670018864 DctM-like transporters; Region: DctM; pfam06808 339670018865 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 339670018866 6-phosphogluconolactonase; Provisional; Region: PRK11028 339670018867 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 339670018868 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 339670018869 dimer interface [polypeptide binding]; other site 339670018870 ligand binding site [chemical binding]; other site 339670018871 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 339670018872 dimerization interface [polypeptide binding]; other site 339670018873 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670018874 dimer interface [polypeptide binding]; other site 339670018875 putative CheW interface [polypeptide binding]; other site 339670018876 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 339670018877 FAD binding domain; Region: FAD_binding_4; pfam01565 339670018878 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 339670018879 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 339670018880 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670018881 Walker A/P-loop; other site 339670018882 ATP binding site [chemical binding]; other site 339670018883 Q-loop/lid; other site 339670018884 ABC transporter signature motif; other site 339670018885 Walker B; other site 339670018886 D-loop; other site 339670018887 H-loop/switch region; other site 339670018888 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 339670018889 Methyltransferase domain; Region: Methyltransf_31; pfam13847 339670018890 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670018891 S-adenosylmethionine binding site [chemical binding]; other site 339670018892 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 339670018893 citrylCoA binding site [chemical binding]; other site 339670018894 oxalacetate binding site [chemical binding]; other site 339670018895 coenzyme A binding site [chemical binding]; other site 339670018896 catalytic triad [active] 339670018897 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670018898 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670018899 active site 339670018900 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 339670018901 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670018902 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 339670018903 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670018904 acyl-activating enzyme (AAE) consensus motif; other site 339670018905 acyl-activating enzyme (AAE) consensus motif; other site 339670018906 AMP binding site [chemical binding]; other site 339670018907 active site 339670018908 CoA binding site [chemical binding]; other site 339670018909 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 339670018910 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 339670018911 dimer interface [polypeptide binding]; other site 339670018912 active site 339670018913 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 339670018914 catalytic residues [active] 339670018915 substrate binding site [chemical binding]; other site 339670018916 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 339670018917 active site 339670018918 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 339670018919 dinuclear metal binding motif [ion binding]; other site 339670018920 Phosphopantetheine attachment site; Region: PP-binding; cl09936 339670018921 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 339670018922 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 339670018923 FtsX-like permease family; Region: FtsX; pfam02687 339670018924 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 339670018925 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 339670018926 Walker A/P-loop; other site 339670018927 ATP binding site [chemical binding]; other site 339670018928 Q-loop/lid; other site 339670018929 ABC transporter signature motif; other site 339670018930 Walker B; other site 339670018931 D-loop; other site 339670018932 H-loop/switch region; other site 339670018933 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 339670018934 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 339670018935 acyl-activating enzyme (AAE) consensus motif; other site 339670018936 active site 339670018937 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 339670018938 Fatty acid desaturase; Region: FA_desaturase; pfam00487 339670018939 putative di-iron ligands [ion binding]; other site 339670018940 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 339670018941 dinuclear metal binding motif [ion binding]; other site 339670018942 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670018943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670018944 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670018945 dimerization interface [polypeptide binding]; other site 339670018946 substrate binding pocket [chemical binding]; other site 339670018947 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 339670018948 proline/glycine betaine transporter; Provisional; Region: PRK10642 339670018949 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670018950 putative substrate translocation pore; other site 339670018951 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670018952 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670018953 trimer interface [polypeptide binding]; other site 339670018954 eyelet of channel; other site 339670018955 acetyl-CoA synthetase; Provisional; Region: PRK00174 339670018956 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 339670018957 active site 339670018958 CoA binding site [chemical binding]; other site 339670018959 acyl-activating enzyme (AAE) consensus motif; other site 339670018960 AMP binding site [chemical binding]; other site 339670018961 acetate binding site [chemical binding]; other site 339670018962 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 339670018963 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 339670018964 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 339670018965 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 339670018966 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 339670018967 DNA binding residues [nucleotide binding] 339670018968 High potential iron-sulfur protein; Region: HIPIP; pfam01355 339670018969 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670018970 substrate binding pocket [chemical binding]; other site 339670018971 membrane-bound complex binding site; other site 339670018972 hinge residues; other site 339670018973 Cytochrome c; Region: Cytochrom_C; pfam00034 339670018974 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 339670018975 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 339670018976 dimer interface [polypeptide binding]; other site 339670018977 Trp docking motif [polypeptide binding]; other site 339670018978 active site 339670018979 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 339670018980 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 339670018981 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 339670018982 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670018983 Walker A motif; other site 339670018984 ATP binding site [chemical binding]; other site 339670018985 Walker B motif; other site 339670018986 arginine finger; other site 339670018987 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 339670018988 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 339670018989 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 339670018990 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 339670018991 coenzyme PQQ biosynthesis protein PqqD; Region: PQQ_PqqD; TIGR03859 339670018992 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 339670018993 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 339670018994 FeS/SAM binding site; other site 339670018995 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 339670018996 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670018997 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 339670018998 Bacterial sugar transferase; Region: Bac_transf; pfam02397 339670018999 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 339670019000 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 339670019001 SLBB domain; Region: SLBB; pfam10531 339670019002 SLBB domain; Region: SLBB; pfam10531 339670019003 Low molecular weight phosphatase family; Region: LMWPc; cd00115 339670019004 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 339670019005 active site 339670019006 tyrosine kinase; Provisional; Region: PRK11519 339670019007 Chain length determinant protein; Region: Wzz; pfam02706 339670019008 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 339670019009 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 339670019010 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 339670019011 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 339670019012 putative acyl transferase; Provisional; Region: PRK10191 339670019013 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 339670019014 trimer interface [polypeptide binding]; other site 339670019015 active site 339670019016 substrate binding site [chemical binding]; other site 339670019017 CoA binding site [chemical binding]; other site 339670019018 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670019019 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670019020 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670019021 Probable transposase; Region: OrfB_IS605; pfam01385 339670019022 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 339670019023 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 339670019024 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 339670019025 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 339670019026 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 339670019027 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670019028 active site 339670019029 motif I; other site 339670019030 motif II; other site 339670019031 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 339670019032 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 339670019033 active site 339670019034 KpsF/GutQ family protein; Region: kpsF; TIGR00393 339670019035 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 339670019036 putative active site [active] 339670019037 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 339670019038 BNR repeat-like domain; Region: BNR_2; pfam13088 339670019039 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 339670019040 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 339670019041 active site 339670019042 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 339670019043 active site 339670019044 tetramer interface; other site 339670019045 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 339670019046 H-NS histone family; Region: Histone_HNS; pfam00816 339670019047 Arginine degradation protein (predicted deacylase) [Amino acid transport and metabolism]; Region: RocB; COG4187 339670019048 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 339670019049 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 339670019050 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 339670019051 active site 339670019052 DNA binding site [nucleotide binding] 339670019053 Int/Topo IB signature motif; other site 339670019054 catalytic residues [active] 339670019055 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 339670019056 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 339670019057 putative ligand binding site [chemical binding]; other site 339670019058 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 339670019059 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670019060 Walker A/P-loop; other site 339670019061 ATP binding site [chemical binding]; other site 339670019062 Q-loop/lid; other site 339670019063 ABC transporter signature motif; other site 339670019064 Walker B; other site 339670019065 D-loop; other site 339670019066 H-loop/switch region; other site 339670019067 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670019068 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670019069 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670019070 TM-ABC transporter signature motif; other site 339670019071 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670019072 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670019073 TM-ABC transporter signature motif; other site 339670019074 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 339670019075 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 339670019076 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670019077 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670019078 dimer interface [polypeptide binding]; other site 339670019079 phosphorylation site [posttranslational modification] 339670019080 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670019081 ATP binding site [chemical binding]; other site 339670019082 Mg2+ binding site [ion binding]; other site 339670019083 G-X-G motif; other site 339670019084 Response regulator receiver domain; Region: Response_reg; pfam00072 339670019085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670019086 active site 339670019087 phosphorylation site [posttranslational modification] 339670019088 intermolecular recognition site; other site 339670019089 dimerization interface [polypeptide binding]; other site 339670019090 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670019091 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670019092 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 339670019093 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 339670019094 trimer interface [polypeptide binding]; other site 339670019095 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 339670019096 trimer interface [polypeptide binding]; other site 339670019097 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 339670019098 trimer interface [polypeptide binding]; other site 339670019099 YadA-like C-terminal region; Region: YadA; pfam03895 339670019100 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 339670019101 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670019102 ligand binding site [chemical binding]; other site 339670019103 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 339670019104 putative transposase OrfB; Reviewed; Region: PHA02517 339670019105 HTH-like domain; Region: HTH_21; pfam13276 339670019106 Integrase core domain; Region: rve; pfam00665 339670019107 Integrase core domain; Region: rve_2; pfam13333 339670019108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 339670019109 Transposase; Region: HTH_Tnp_1; cl17663 339670019110 Helix-turn-helix domain; Region: HTH_28; pfam13518 339670019111 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 339670019112 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 339670019113 Cytochrome c; Region: Cytochrom_C; cl11414 339670019114 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 339670019115 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 339670019116 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 339670019117 Subunit I/III interface [polypeptide binding]; other site 339670019118 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 339670019119 Subunit I/III interface [polypeptide binding]; other site 339670019120 Predicted small integral membrane protein [Function unknown]; Region: COG5605 339670019121 High potential iron-sulfur protein; Region: HIPIP; pfam01355 339670019122 cell density-dependent motility repressor; Provisional; Region: PRK10082 339670019123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019124 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670019125 dimerization interface [polypeptide binding]; other site 339670019126 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670019127 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 339670019128 aspartate racemase; Region: asp_race; TIGR00035 339670019129 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 339670019130 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 339670019131 aspartate racemase; Region: asp_race; TIGR00035 339670019132 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 339670019133 dimer interaction site [polypeptide binding]; other site 339670019134 substrate-binding tunnel; other site 339670019135 active site 339670019136 catalytic site [active] 339670019137 substrate binding site [chemical binding]; other site 339670019138 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 339670019139 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 339670019140 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 339670019141 short chain dehydrogenase; Provisional; Region: PRK06172 339670019142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670019143 NAD(P) binding site [chemical binding]; other site 339670019144 active site 339670019145 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 339670019146 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 339670019147 putative NAD(P) binding site [chemical binding]; other site 339670019148 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670019149 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670019150 active site 339670019151 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 339670019152 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 339670019153 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670019154 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 339670019155 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670019156 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 339670019157 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 339670019158 dimer interface [polypeptide binding]; other site 339670019159 active site 339670019160 CoA binding pocket [chemical binding]; other site 339670019161 short chain dehydrogenase; Provisional; Region: PRK06172 339670019162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670019163 NAD(P) binding site [chemical binding]; other site 339670019164 active site 339670019165 pyruvate phosphate dikinase; Provisional; Region: PRK05878 339670019166 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 339670019167 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 339670019168 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 339670019169 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 339670019170 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 339670019171 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 339670019172 dimer interface [polypeptide binding]; other site 339670019173 active site 339670019174 CoA binding pocket [chemical binding]; other site 339670019175 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 339670019176 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 339670019177 dimer interface [polypeptide binding]; other site 339670019178 PYR/PP interface [polypeptide binding]; other site 339670019179 TPP binding site [chemical binding]; other site 339670019180 substrate binding site [chemical binding]; other site 339670019181 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 339670019182 TPP-binding site; other site 339670019183 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 339670019184 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670019185 active site 339670019186 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670019187 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670019188 active site 339670019189 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 339670019190 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 339670019191 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670019192 Thioesterase domain; Region: Thioesterase; pfam00975 339670019193 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 339670019194 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 339670019195 [2Fe-2S] cluster binding site [ion binding]; other site 339670019196 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_3; cd08887 339670019197 putative alpha subunit interface [polypeptide binding]; other site 339670019198 putative active site [active] 339670019199 putative substrate binding site [chemical binding]; other site 339670019200 Fe binding site [ion binding]; other site 339670019201 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 339670019202 CHASE2 domain; Region: CHASE2; cl01732 339670019203 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 339670019204 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670019205 dimer interface [polypeptide binding]; other site 339670019206 phosphorylation site [posttranslational modification] 339670019207 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670019208 ATP binding site [chemical binding]; other site 339670019209 Mg2+ binding site [ion binding]; other site 339670019210 G-X-G motif; other site 339670019211 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 339670019212 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 339670019213 active site 339670019214 TDP-binding site; other site 339670019215 Condensation domain; Region: Condensation; pfam00668 339670019216 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 339670019217 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 339670019218 homodimer interface [polypeptide binding]; other site 339670019219 active site 339670019220 TDP-binding site; other site 339670019221 acceptor substrate-binding pocket; other site 339670019222 Condensation domain; Region: Condensation; pfam00668 339670019223 Uncharacterized conserved protein [Function unknown]; Region: COG1432 339670019224 LabA_like proteins; Region: LabA; cd10911 339670019225 putative metal binding site [ion binding]; other site 339670019226 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 339670019227 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 339670019228 ligand binding site [chemical binding]; other site 339670019229 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 339670019230 Haemagglutinin; Region: HIM; pfam05662 339670019231 YadA-like C-terminal region; Region: YadA; pfam03895 339670019232 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 339670019233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670019234 active site 339670019235 phosphorylation site [posttranslational modification] 339670019236 intermolecular recognition site; other site 339670019237 dimerization interface [polypeptide binding]; other site 339670019238 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 339670019239 DNA binding site [nucleotide binding] 339670019240 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 339670019241 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 339670019242 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 339670019243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670019244 Walker A/P-loop; other site 339670019245 ATP binding site [chemical binding]; other site 339670019246 Q-loop/lid; other site 339670019247 ABC transporter signature motif; other site 339670019248 Walker B; other site 339670019249 D-loop; other site 339670019250 H-loop/switch region; other site 339670019251 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670019252 Walker A/P-loop; other site 339670019253 ATP binding site [chemical binding]; other site 339670019254 Q-loop/lid; other site 339670019255 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 339670019256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 339670019257 Walker A/P-loop; other site 339670019258 ATP binding site [chemical binding]; other site 339670019259 Q-loop/lid; other site 339670019260 ABC transporter signature motif; other site 339670019261 Walker B; other site 339670019262 D-loop; other site 339670019263 H-loop/switch region; other site 339670019264 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670019265 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670019266 substrate binding pocket [chemical binding]; other site 339670019267 membrane-bound complex binding site; other site 339670019268 hinge residues; other site 339670019269 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670019270 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 339670019271 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670019272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019273 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670019274 dimerization interface [polypeptide binding]; other site 339670019275 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 339670019276 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670019277 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 339670019278 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670019279 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670019280 catalytic residue [active] 339670019281 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 339670019282 Ligand Binding Site [chemical binding]; other site 339670019283 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 339670019284 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 339670019285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670019286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019287 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 339670019288 putative effector binding pocket; other site 339670019289 putative dimerization interface [polypeptide binding]; other site 339670019290 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 339670019291 homotrimer interaction site [polypeptide binding]; other site 339670019292 putative active site [active] 339670019293 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 339670019294 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 339670019295 conserved cys residue [active] 339670019296 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670019297 SnoaL-like domain; Region: SnoaL_3; pfam13474 339670019298 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 339670019299 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 339670019300 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 339670019301 conserved cys residue [active] 339670019302 short chain dehydrogenase; Provisional; Region: PRK06500 339670019303 classical (c) SDRs; Region: SDR_c; cd05233 339670019304 NAD(P) binding site [chemical binding]; other site 339670019305 active site 339670019306 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 339670019307 active site flap/lid [active] 339670019308 nucleophilic elbow; other site 339670019309 catalytic triad [active] 339670019310 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670019311 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670019312 active site 339670019313 catalytic tetrad [active] 339670019314 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 339670019315 DEAD-like helicases superfamily; Region: DEXDc; smart00487 339670019316 ATP binding site [chemical binding]; other site 339670019317 Mg++ binding site [ion binding]; other site 339670019318 motif III; other site 339670019319 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 339670019320 nucleotide binding region [chemical binding]; other site 339670019321 ATP-binding site [chemical binding]; other site 339670019322 benzoate transport; Region: 2A0115; TIGR00895 339670019323 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019324 putative substrate translocation pore; other site 339670019325 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019326 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670019327 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670019328 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 339670019329 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 339670019330 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 339670019331 active site 339670019332 Uncharacterized conserved protein [Function unknown]; Region: COG3777 339670019333 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 339670019334 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 339670019335 active site 2 [active] 339670019336 active site 1 [active] 339670019337 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 339670019338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019339 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 339670019340 putative dimerization interface [polypeptide binding]; other site 339670019341 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 339670019342 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670019343 substrate binding pocket [chemical binding]; other site 339670019344 membrane-bound complex binding site; other site 339670019345 hinge residues; other site 339670019346 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 339670019347 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 339670019348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670019349 active site 339670019350 phosphorylation site [posttranslational modification] 339670019351 intermolecular recognition site; other site 339670019352 dimerization interface [polypeptide binding]; other site 339670019353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 339670019354 Zn2+ binding site [ion binding]; other site 339670019355 Mg2+ binding site [ion binding]; other site 339670019356 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 339670019357 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 339670019358 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 339670019359 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 339670019360 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670019361 dimer interface [polypeptide binding]; other site 339670019362 phosphorylation site [posttranslational modification] 339670019363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670019364 ATP binding site [chemical binding]; other site 339670019365 Mg2+ binding site [ion binding]; other site 339670019366 G-X-G motif; other site 339670019367 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 339670019368 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670019369 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019370 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 339670019371 putative dimerization interface [polypeptide binding]; other site 339670019372 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 339670019373 active site 339670019374 catalytic residues [active] 339670019375 metal binding site [ion binding]; metal-binding site 339670019376 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670019377 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670019378 benzoate transport; Region: 2A0115; TIGR00895 339670019379 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019380 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019381 Predicted membrane protein [Function unknown]; Region: COG2246 339670019382 GtrA-like protein; Region: GtrA; pfam04138 339670019383 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 339670019384 Ligand binding site; other site 339670019385 Putative Catalytic site; other site 339670019386 DXD motif; other site 339670019387 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 339670019388 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 339670019389 Flp/Fap pilin component; Region: Flp_Fap; cl01585 339670019390 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 339670019391 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 339670019392 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 339670019393 Walker A motif; other site 339670019394 ATP binding site [chemical binding]; other site 339670019395 Walker B motif; other site 339670019396 arginine finger; other site 339670019397 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 339670019398 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 339670019399 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 339670019400 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 339670019401 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 339670019402 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 339670019403 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 339670019404 TadE-like protein; Region: TadE; pfam07811 339670019405 TadE-like protein; Region: TadE; pfam07811 339670019406 Response regulator receiver domain; Region: Response_reg; pfam00072 339670019407 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 339670019408 active site 339670019409 phosphorylation site [posttranslational modification] 339670019410 intermolecular recognition site; other site 339670019411 dimerization interface [polypeptide binding]; other site 339670019412 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 339670019413 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 339670019414 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 339670019415 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 339670019416 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 339670019417 ATP binding site [chemical binding]; other site 339670019418 Walker A motif; other site 339670019419 hexamer interface [polypeptide binding]; other site 339670019420 Walker B motif; other site 339670019421 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 339670019422 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670019423 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 339670019424 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 339670019425 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 339670019426 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 339670019427 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 339670019428 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 339670019429 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 339670019430 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 339670019431 Beta-lactamase; Region: Beta-lactamase; pfam00144 339670019432 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 339670019433 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 339670019434 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 339670019435 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670019436 short chain dehydrogenase; Provisional; Region: PRK08265 339670019437 classical (c) SDRs; Region: SDR_c; cd05233 339670019438 NAD(P) binding site [chemical binding]; other site 339670019439 active site 339670019440 Dienelactone hydrolase family; Region: DLH; pfam01738 339670019441 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 339670019442 SnoaL-like domain; Region: SnoaL_2; pfam12680 339670019443 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670019444 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670019445 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 339670019446 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 339670019447 substrate binding site [chemical binding]; other site 339670019448 catalytic Zn binding site [ion binding]; other site 339670019449 NAD binding site [chemical binding]; other site 339670019450 structural Zn binding site [ion binding]; other site 339670019451 dimer interface [polypeptide binding]; other site 339670019452 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 339670019453 putative metal binding site [ion binding]; other site 339670019454 putative homodimer interface [polypeptide binding]; other site 339670019455 putative homotetramer interface [polypeptide binding]; other site 339670019456 putative homodimer-homodimer interface [polypeptide binding]; other site 339670019457 putative allosteric switch controlling residues; other site 339670019458 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 339670019459 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019460 putative substrate translocation pore; other site 339670019461 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670019462 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670019463 trimer interface [polypeptide binding]; other site 339670019464 eyelet of channel; other site 339670019465 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 339670019466 Amidase; Region: Amidase; cl11426 339670019467 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670019468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670019469 DNA-binding site [nucleotide binding]; DNA binding site 339670019470 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670019471 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670019472 homodimer interface [polypeptide binding]; other site 339670019473 catalytic residue [active] 339670019474 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 339670019475 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 339670019476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019477 LysR substrate binding domain; Region: LysR_substrate; pfam03466 339670019478 dimerization interface [polypeptide binding]; other site 339670019479 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 339670019480 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 339670019481 metal binding site [ion binding]; metal-binding site 339670019482 putative dimer interface [polypeptide binding]; other site 339670019483 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 339670019484 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670019485 substrate binding pocket [chemical binding]; other site 339670019486 membrane-bound complex binding site; other site 339670019487 hinge residues; other site 339670019488 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670019489 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670019490 trimer interface [polypeptide binding]; other site 339670019491 eyelet of channel; other site 339670019492 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670019493 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 339670019494 DNA binding site [nucleotide binding] 339670019495 domain linker motif; other site 339670019496 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 339670019497 dimerization interface [polypeptide binding]; other site 339670019498 ligand binding site [chemical binding]; other site 339670019499 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 339670019500 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 339670019501 Walker A/P-loop; other site 339670019502 ATP binding site [chemical binding]; other site 339670019503 Q-loop/lid; other site 339670019504 ABC transporter signature motif; other site 339670019505 Walker B; other site 339670019506 D-loop; other site 339670019507 H-loop/switch region; other site 339670019508 TOBE domain; Region: TOBE_2; pfam08402 339670019509 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 339670019510 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 339670019511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670019512 dimer interface [polypeptide binding]; other site 339670019513 putative PBP binding loops; other site 339670019514 ABC-ATPase subunit interface; other site 339670019515 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 339670019516 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670019517 dimer interface [polypeptide binding]; other site 339670019518 conserved gate region; other site 339670019519 putative PBP binding loops; other site 339670019520 ABC-ATPase subunit interface; other site 339670019521 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 339670019522 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 339670019523 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 339670019524 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 339670019525 sugar efflux transporter; Region: 2A0120; TIGR00899 339670019526 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019527 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; pfam07745 339670019528 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 339670019529 active site 339670019530 catalytic residues [active] 339670019531 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 339670019532 Transcriptional regulators [Transcription]; Region: PurR; COG1609 339670019533 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670019534 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670019535 xylose isomerase; Provisional; Region: PRK05474 339670019536 xylose isomerase; Region: xylose_isom_A; TIGR02630 339670019537 xylulokinase; Provisional; Region: PRK15027 339670019538 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 339670019539 N- and C-terminal domain interface [polypeptide binding]; other site 339670019540 active site 339670019541 MgATP binding site [chemical binding]; other site 339670019542 catalytic site [active] 339670019543 metal binding site [ion binding]; metal-binding site 339670019544 xylulose binding site [chemical binding]; other site 339670019545 homodimer interface [polypeptide binding]; other site 339670019546 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 339670019547 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 339670019548 putative ligand binding site [chemical binding]; other site 339670019549 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 339670019550 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 339670019551 Walker A/P-loop; other site 339670019552 ATP binding site [chemical binding]; other site 339670019553 Q-loop/lid; other site 339670019554 ABC transporter signature motif; other site 339670019555 Walker B; other site 339670019556 D-loop; other site 339670019557 H-loop/switch region; other site 339670019558 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 339670019559 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 339670019560 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 339670019561 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 339670019562 TM-ABC transporter signature motif; other site 339670019563 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670019564 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019565 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 339670019566 putative effector binding pocket; other site 339670019567 putative dimerization interface [polypeptide binding]; other site 339670019568 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 339670019569 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 339670019570 active site 339670019571 catalytic tetrad [active] 339670019572 Cupin domain; Region: Cupin_2; cl17218 339670019573 NmrA-like family; Region: NmrA; pfam05368 339670019574 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 339670019575 NADP binding site [chemical binding]; other site 339670019576 active site 339670019577 regulatory binding site [polypeptide binding]; other site 339670019578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670019579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019580 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670019581 putative effector binding pocket; other site 339670019582 dimerization interface [polypeptide binding]; other site 339670019583 Protein of unknown function DUF72; Region: DUF72; pfam01904 339670019584 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 339670019585 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 339670019586 active site 339670019587 Cache domain; Region: Cache_1; pfam02743 339670019588 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 339670019589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 339670019590 metal binding site [ion binding]; metal-binding site 339670019591 active site 339670019592 I-site; other site 339670019593 succinic semialdehyde dehydrogenase; Region: PLN02278 339670019594 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 339670019595 tetramerization interface [polypeptide binding]; other site 339670019596 NAD(P) binding site [chemical binding]; other site 339670019597 catalytic residues [active] 339670019598 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670019599 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670019600 putative DNA binding site [nucleotide binding]; other site 339670019601 putative Zn2+ binding site [ion binding]; other site 339670019602 AsnC family; Region: AsnC_trans_reg; pfam01037 339670019603 hypothetical protein; Provisional; Region: PRK05965 339670019604 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670019605 inhibitor-cofactor binding pocket; inhibition site 339670019606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670019607 catalytic residue [active] 339670019608 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 339670019609 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 339670019610 putative ligand binding site [chemical binding]; other site 339670019611 NAD binding site [chemical binding]; other site 339670019612 dimerization interface [polypeptide binding]; other site 339670019613 catalytic site [active] 339670019614 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 339670019615 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670019616 Coenzyme A binding pocket [chemical binding]; other site 339670019617 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 339670019618 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670019619 motif II; other site 339670019620 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 339670019621 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 339670019622 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 339670019623 dimer interface [polypeptide binding]; other site 339670019624 putative CheW interface [polypeptide binding]; other site 339670019625 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 339670019626 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 339670019627 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 339670019628 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670019629 dimer interface [polypeptide binding]; other site 339670019630 conserved gate region; other site 339670019631 putative PBP binding loops; other site 339670019632 ABC-ATPase subunit interface; other site 339670019633 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 339670019634 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 339670019635 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 339670019636 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670019637 Walker A/P-loop; other site 339670019638 ATP binding site [chemical binding]; other site 339670019639 Q-loop/lid; other site 339670019640 ABC transporter signature motif; other site 339670019641 Walker B; other site 339670019642 D-loop; other site 339670019643 H-loop/switch region; other site 339670019644 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 339670019645 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 339670019646 Walker A/P-loop; other site 339670019647 ATP binding site [chemical binding]; other site 339670019648 Q-loop/lid; other site 339670019649 ABC transporter signature motif; other site 339670019650 Walker B; other site 339670019651 D-loop; other site 339670019652 H-loop/switch region; other site 339670019653 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 339670019654 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670019655 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670019656 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670019657 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670019658 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670019659 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 339670019660 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 339670019661 hydroxyglutarate oxidase; Provisional; Region: PRK11728 339670019662 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 339670019663 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 339670019664 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 339670019665 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670019666 NAD binding site [chemical binding]; other site 339670019667 catalytic residues [active] 339670019668 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 339670019669 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 339670019670 metal binding site [ion binding]; metal-binding site 339670019671 putative dimer interface [polypeptide binding]; other site 339670019672 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 339670019673 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670019674 Coenzyme A binding pocket [chemical binding]; other site 339670019675 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 339670019676 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 339670019677 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 339670019678 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 339670019679 N-terminal plug; other site 339670019680 ligand-binding site [chemical binding]; other site 339670019681 Response regulator receiver domain; Region: Response_reg; pfam00072 339670019682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670019683 active site 339670019684 phosphorylation site [posttranslational modification] 339670019685 intermolecular recognition site; other site 339670019686 dimerization interface [polypeptide binding]; other site 339670019687 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670019688 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670019689 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 339670019690 trimer interface [polypeptide binding]; other site 339670019691 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 339670019692 YadA-like C-terminal region; Region: YadA; pfam03895 339670019693 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 339670019694 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 339670019695 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 339670019696 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 339670019697 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 339670019698 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 339670019699 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670019700 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670019701 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 339670019702 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 339670019703 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 339670019704 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 339670019705 Walker A/P-loop; other site 339670019706 ATP binding site [chemical binding]; other site 339670019707 Q-loop/lid; other site 339670019708 ABC transporter signature motif; other site 339670019709 Walker B; other site 339670019710 D-loop; other site 339670019711 H-loop/switch region; other site 339670019712 Helix-turn-helix domain; Region: HTH_17; pfam12728 339670019713 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 339670019714 active site 339670019715 coenzyme A binding site [chemical binding]; other site 339670019716 citrylCoA binding site [chemical binding]; other site 339670019717 dimer interface [polypeptide binding]; other site 339670019718 Citrate synthase; Region: Citrate_synt; pfam00285 339670019719 oxalacetate/citrate binding site [chemical binding]; other site 339670019720 catalytic triad [active] 339670019721 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670019722 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 339670019723 active site 339670019724 metal binding site [ion binding]; metal-binding site 339670019725 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019726 D-galactonate transporter; Region: 2A0114; TIGR00893 339670019727 putative substrate translocation pore; other site 339670019728 classical (c) SDRs; Region: SDR_c; cd05233 339670019729 NAD(P) binding site [chemical binding]; other site 339670019730 active site 339670019731 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 339670019732 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 339670019733 dimerization interface [polypeptide binding]; other site 339670019734 ligand binding site [chemical binding]; other site 339670019735 NADP binding site [chemical binding]; other site 339670019736 catalytic site [active] 339670019737 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 339670019738 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 339670019739 active site 339670019740 catalytic triad [active] 339670019741 calcium binding site [ion binding]; other site 339670019742 H-NS histone family; Region: Histone_HNS; pfam00816 339670019743 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 339670019744 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 339670019745 Uncharacterized conserved protein [Function unknown]; Region: COG2128 339670019746 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 339670019747 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 339670019748 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 339670019749 DNA-binding site [nucleotide binding]; DNA binding site 339670019750 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 339670019751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670019752 homodimer interface [polypeptide binding]; other site 339670019753 catalytic residue [active] 339670019754 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 339670019755 Zn2+ binding site [ion binding]; other site 339670019756 Mg2+ binding site [ion binding]; other site 339670019757 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 339670019758 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 339670019759 putative dimer interface [polypeptide binding]; other site 339670019760 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 339670019761 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 339670019762 putative dimer interface [polypeptide binding]; other site 339670019763 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 339670019764 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 339670019765 putative dimer interface [polypeptide binding]; other site 339670019766 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 339670019767 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 339670019768 ring oligomerisation interface [polypeptide binding]; other site 339670019769 ATP/Mg binding site [chemical binding]; other site 339670019770 stacking interactions; other site 339670019771 hinge regions; other site 339670019772 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 339670019773 oligomerisation interface [polypeptide binding]; other site 339670019774 mobile loop; other site 339670019775 roof hairpin; other site 339670019776 Predicted transcriptional regulators [Transcription]; Region: COG1733 339670019777 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 339670019778 SnoaL-like domain; Region: SnoaL_2; pfam12680 339670019779 short chain dehydrogenase; Provisional; Region: PRK06523 339670019780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670019781 NAD(P) binding site [chemical binding]; other site 339670019782 active site 339670019783 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 339670019784 Amidase; Region: Amidase; cl11426 339670019785 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019786 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670019787 putative substrate translocation pore; other site 339670019788 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 339670019789 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670019790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670019791 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670019792 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670019793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670019794 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 339670019795 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 339670019796 homodimer interface [polypeptide binding]; other site 339670019797 substrate-cofactor binding pocket; other site 339670019798 catalytic residue [active] 339670019799 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 339670019800 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 339670019801 NAD(P) binding site [chemical binding]; other site 339670019802 catalytic residues [active] 339670019803 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 339670019804 PYR/PP interface [polypeptide binding]; other site 339670019805 dimer interface [polypeptide binding]; other site 339670019806 TPP binding site [chemical binding]; other site 339670019807 sulfopyruvate decarboxylase, beta subunit; Region: sulfopy_beta; TIGR03846 339670019808 Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six...; Region: TPP_ComE; cd03372 339670019809 TPP-binding site; other site 339670019810 choline dehydrogenase; Validated; Region: PRK02106 339670019811 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670019812 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 339670019813 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 339670019814 CoenzymeA binding site [chemical binding]; other site 339670019815 subunit interaction site [polypeptide binding]; other site 339670019816 PHB binding site; other site 339670019817 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670019818 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670019819 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 339670019820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019821 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 339670019822 substrate binding pocket [chemical binding]; other site 339670019823 dimerization interface [polypeptide binding]; other site 339670019824 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670019825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019826 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670019827 dimerization interface [polypeptide binding]; other site 339670019828 substrate binding pocket [chemical binding]; other site 339670019829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019830 putative substrate translocation pore; other site 339670019831 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670019832 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 339670019833 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 339670019834 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 339670019835 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670019836 putative substrate translocation pore; other site 339670019837 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 339670019838 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 339670019839 motif II; other site 339670019840 cell density-dependent motility repressor; Provisional; Region: PRK10082 339670019841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019842 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 339670019843 dimerization interface [polypeptide binding]; other site 339670019844 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 339670019845 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 339670019846 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670019847 catalytic residue [active] 339670019848 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 339670019849 homotrimer interaction site [polypeptide binding]; other site 339670019850 putative active site [active] 339670019851 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 339670019852 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 339670019853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670019854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019855 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 339670019856 putative dimerization interface [polypeptide binding]; other site 339670019857 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 339670019858 aspartate racemase; Region: asp_race; TIGR00035 339670019859 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670019860 short chain dehydrogenase; Provisional; Region: PRK08339 339670019861 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 339670019862 putative NAD(P) binding site [chemical binding]; other site 339670019863 putative active site [active] 339670019864 Uncharacterized conserved protein [Function unknown]; Region: COG5470 339670019865 aminotransferase; Provisional; Region: PRK13356 339670019866 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 339670019867 homodimer interface [polypeptide binding]; other site 339670019868 substrate-cofactor binding pocket; other site 339670019869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670019870 catalytic residue [active] 339670019871 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670019872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019873 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 339670019874 substrate binding pocket [chemical binding]; other site 339670019875 dimerization interface [polypeptide binding]; other site 339670019876 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 339670019877 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 339670019878 dimer interface [polypeptide binding]; other site 339670019879 PYR/PP interface [polypeptide binding]; other site 339670019880 TPP binding site [chemical binding]; other site 339670019881 substrate binding site [chemical binding]; other site 339670019882 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 339670019883 TPP-binding site; other site 339670019884 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 339670019885 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670019886 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670019887 putative DNA binding site [nucleotide binding]; other site 339670019888 putative Zn2+ binding site [ion binding]; other site 339670019889 AsnC family; Region: AsnC_trans_reg; pfam01037 339670019890 hypothetical protein; Provisional; Region: PRK05939 339670019891 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 339670019892 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 339670019893 catalytic residue [active] 339670019894 glutathione reductase; Validated; Region: PRK06116 339670019895 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670019896 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670019897 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 339670019898 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 339670019899 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 339670019900 dimer interface [polypeptide binding]; other site 339670019901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670019902 catalytic residue [active] 339670019903 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 339670019904 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 339670019905 putative NAD(P) binding site [chemical binding]; other site 339670019906 putative substrate binding site [chemical binding]; other site 339670019907 catalytic Zn binding site [ion binding]; other site 339670019908 structural Zn binding site [ion binding]; other site 339670019909 short chain dehydrogenase; Provisional; Region: PRK06500 339670019910 classical (c) SDRs; Region: SDR_c; cd05233 339670019911 NAD(P) binding site [chemical binding]; other site 339670019912 active site 339670019913 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 339670019914 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 339670019915 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 339670019916 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 339670019917 Transcriptional activator [Transcription]; Region: ChrR; COG3806 339670019918 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 339670019919 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 339670019920 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 339670019921 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 339670019922 classical (c) SDRs; Region: SDR_c; cd05233 339670019923 NAD(P) binding site [chemical binding]; other site 339670019924 active site 339670019925 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670019926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019927 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670019928 dimerization interface [polypeptide binding]; other site 339670019929 substrate binding pocket [chemical binding]; other site 339670019930 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670019931 WHG domain; Region: WHG; pfam13305 339670019932 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 339670019933 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 339670019934 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 339670019935 short chain dehydrogenase; Provisional; Region: PRK06181 339670019936 classical (c) SDRs; Region: SDR_c; cd05233 339670019937 NAD(P) binding site [chemical binding]; other site 339670019938 active site 339670019939 OsmC-like protein; Region: OsmC; pfam02566 339670019940 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 339670019941 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 339670019942 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 339670019943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670019944 Coenzyme A binding pocket [chemical binding]; other site 339670019945 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 339670019946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670019947 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 339670019948 dimerization interface [polypeptide binding]; other site 339670019949 substrate binding pocket [chemical binding]; other site 339670019950 argininosuccinate lyase; Provisional; Region: PRK00855 339670019951 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 339670019952 active sites [active] 339670019953 tetramer interface [polypeptide binding]; other site 339670019954 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670019955 dimer interface [polypeptide binding]; other site 339670019956 conserved gate region; other site 339670019957 putative PBP binding loops; other site 339670019958 ABC-ATPase subunit interface; other site 339670019959 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 339670019960 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 339670019961 Walker A/P-loop; other site 339670019962 ATP binding site [chemical binding]; other site 339670019963 Q-loop/lid; other site 339670019964 ABC transporter signature motif; other site 339670019965 Walker B; other site 339670019966 D-loop; other site 339670019967 H-loop/switch region; other site 339670019968 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 339670019969 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 339670019970 substrate binding pocket [chemical binding]; other site 339670019971 membrane-bound complex binding site; other site 339670019972 hinge residues; other site 339670019973 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 339670019974 active site 339670019975 catalytic site [active] 339670019976 Zn binding site [ion binding]; other site 339670019977 tetramer interface [polypeptide binding]; other site 339670019978 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 339670019979 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 339670019980 active site 339670019981 catalytic site [active] 339670019982 Zn binding site [ion binding]; other site 339670019983 tetramer interface [polypeptide binding]; other site 339670019984 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 339670019985 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 339670019986 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 339670019987 Autotransporter beta-domain; Region: Autotransporter; pfam03797 339670019988 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 339670019989 FAD binding domain; Region: FAD_binding_4; pfam01565 339670019990 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 339670019991 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 339670019992 dimerization interface [polypeptide binding]; other site 339670019993 DNA binding residues [nucleotide binding] 339670019994 TATA Binding Protein (TBP) Associated Factor 7 (TAF7) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex; Region: TAF7; cl04653 339670019995 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 339670019996 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 339670019997 DNA binding residues [nucleotide binding] 339670019998 dimerization interface [polypeptide binding]; other site 339670019999 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 339670020000 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 339670020001 Walker A/P-loop; other site 339670020002 ATP binding site [chemical binding]; other site 339670020003 Q-loop/lid; other site 339670020004 ABC transporter signature motif; other site 339670020005 Walker B; other site 339670020006 D-loop; other site 339670020007 H-loop/switch region; other site 339670020008 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 339670020009 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670020010 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 339670020011 acyl-activating enzyme (AAE) consensus motif; other site 339670020012 AMP binding site [chemical binding]; other site 339670020013 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670020014 Condensation domain; Region: Condensation; pfam00668 339670020015 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670020016 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 339670020017 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670020018 acyl-activating enzyme (AAE) consensus motif; other site 339670020019 AMP binding site [chemical binding]; other site 339670020020 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670020021 Condensation domain; Region: Condensation; pfam00668 339670020022 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670020023 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 339670020024 Condensation domain; Region: Condensation; pfam00668 339670020025 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670020026 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670020027 Thioesterase domain; Region: Thioesterase; pfam00975 339670020028 Condensation domain; Region: Condensation; pfam00668 339670020029 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670020030 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670020031 acyl-activating enzyme (AAE) consensus motif; other site 339670020032 AMP binding site [chemical binding]; other site 339670020033 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670020034 Condensation domain; Region: Condensation; pfam00668 339670020035 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670020036 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 339670020037 Condensation domain; Region: Condensation; pfam00668 339670020038 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 339670020039 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670020040 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 339670020041 acyl-activating enzyme (AAE) consensus motif; other site 339670020042 AMP binding site [chemical binding]; other site 339670020043 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670020044 Condensation domain; Region: Condensation; pfam00668 339670020045 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670020046 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 339670020047 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670020048 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 339670020049 acyl-activating enzyme (AAE) consensus motif; other site 339670020050 AMP binding site [chemical binding]; other site 339670020051 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670020052 Condensation domain; Region: Condensation; pfam00668 339670020053 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 339670020054 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 339670020055 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 339670020056 Predicted membrane protein (DUF2070); Region: DUF2070; pfam09843 339670020057 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670020058 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670020059 active site 339670020060 Acyl transferase domain; Region: Acyl_transf_1; cl08282 339670020061 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 339670020062 KR domain; Region: KR; pfam08659 339670020063 putative NADP binding site [chemical binding]; other site 339670020064 active site 339670020065 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670020066 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 339670020067 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670020068 active site 339670020069 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 339670020070 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670020071 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 339670020072 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670020073 inhibitor-cofactor binding pocket; inhibition site 339670020074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670020075 catalytic residue [active] 339670020076 Condensation domain; Region: Condensation; pfam00668 339670020077 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670020078 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 339670020079 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 339670020080 acyl-activating enzyme (AAE) consensus motif; other site 339670020081 AMP binding site [chemical binding]; other site 339670020082 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 339670020083 Condensation domain; Region: Condensation; pfam00668 339670020084 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 339670020085 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 339670020086 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 339670020087 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 339670020088 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 339670020089 KR domain; Region: KR; pfam08659 339670020090 putative NADP binding site [chemical binding]; other site 339670020091 active site 339670020092 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670020093 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 339670020094 acyl-CoA synthetase; Validated; Region: PRK05850 339670020095 acyl-activating enzyme (AAE) consensus motif; other site 339670020096 active site 339670020097 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 339670020098 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 339670020099 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 339670020100 active site 339670020101 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 339670020102 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 339670020103 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 339670020104 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 339670020105 inhibitor-cofactor binding pocket; inhibition site 339670020106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 339670020107 catalytic residue [active] 339670020108 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 339670020109 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 339670020110 NAD binding site [chemical binding]; other site 339670020111 putative substrate binding site 2 [chemical binding]; other site 339670020112 putative substrate binding site 1 [chemical binding]; other site 339670020113 active site 339670020114 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 339670020115 polysaccharide export protein Wza; Provisional; Region: PRK15078 339670020116 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 339670020117 SLBB domain; Region: SLBB; pfam10531 339670020118 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 339670020119 ATP-grasp domain; Region: ATP-grasp_4; cl17255 339670020120 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 339670020121 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 339670020122 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 339670020123 putative active site [active] 339670020124 putative metal binding site [ion binding]; other site 339670020125 tyrosine kinase; Provisional; Region: PRK11519 339670020126 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 339670020127 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 339670020128 P loop; other site 339670020129 Nucleotide binding site [chemical binding]; other site 339670020130 DTAP/Switch II; other site 339670020131 Switch I; other site 339670020132 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 339670020133 O-Antigen ligase; Region: Wzy_C; pfam04932 339670020134 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 339670020135 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670020136 Bacterial sugar transferase; Region: Bac_transf; pfam02397 339670020137 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 339670020138 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 339670020139 putative ADP-binding pocket [chemical binding]; other site 339670020140 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 339670020141 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 339670020142 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 339670020143 Substrate binding site; other site 339670020144 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 339670020145 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 339670020146 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 339670020147 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 339670020148 putative switch regulator; other site 339670020149 non-specific DNA interactions [nucleotide binding]; other site 339670020150 DNA binding site [nucleotide binding] 339670020151 sequence specific DNA binding site [nucleotide binding]; other site 339670020152 putative cAMP binding site [chemical binding]; other site 339670020153 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 339670020154 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 339670020155 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 339670020156 trimer interface [polypeptide binding]; other site 339670020157 eyelet of channel; other site 339670020158 benzoate transport; Region: 2A0115; TIGR00895 339670020159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670020160 putative substrate translocation pore; other site 339670020161 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670020162 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670020163 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 339670020164 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670020165 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 339670020166 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 339670020167 dimer interface [polypeptide binding]; other site 339670020168 TPP-binding site [chemical binding]; other site 339670020169 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 339670020170 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 339670020171 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 339670020172 E3 interaction surface; other site 339670020173 lipoyl attachment site [posttranslational modification]; other site 339670020174 e3 binding domain; Region: E3_binding; pfam02817 339670020175 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 339670020176 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 339670020177 E3 interaction surface; other site 339670020178 lipoyl attachment site [posttranslational modification]; other site 339670020179 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 339670020180 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 339670020181 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 339670020182 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 339670020183 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 339670020184 putative DNA binding site [nucleotide binding]; other site 339670020185 putative Zn2+ binding site [ion binding]; other site 339670020186 AsnC family; Region: AsnC_trans_reg; pfam01037 339670020187 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 339670020188 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 339670020189 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 339670020190 dimerization interface [polypeptide binding]; other site 339670020191 active site 339670020192 acyl-CoA synthetase; Validated; Region: PRK08162 339670020193 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 339670020194 acyl-activating enzyme (AAE) consensus motif; other site 339670020195 putative active site [active] 339670020196 AMP binding site [chemical binding]; other site 339670020197 putative CoA binding site [chemical binding]; other site 339670020198 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 339670020199 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670020200 Helix-turn-helix domain; Region: HTH_18; pfam12833 339670020201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670020202 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 339670020203 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670020204 substrate binding site [chemical binding]; other site 339670020205 oxyanion hole (OAH) forming residues; other site 339670020206 trimer interface [polypeptide binding]; other site 339670020207 Creatinine amidohydrolase; Region: Creatininase; pfam02633 339670020208 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 339670020209 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 339670020210 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 339670020211 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 339670020212 substrate binding site [chemical binding]; other site 339670020213 oxyanion hole (OAH) forming residues; other site 339670020214 trimer interface [polypeptide binding]; other site 339670020215 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 339670020216 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 339670020217 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 339670020218 acyl-activating enzyme (AAE) consensus motif; other site 339670020219 putative active site [active] 339670020220 putative AMP binding site [chemical binding]; other site 339670020221 putative CoA binding site [chemical binding]; other site 339670020222 Flavin Reductases; Region: FlaRed; cl00801 339670020223 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 339670020224 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 339670020225 active site 339670020226 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 339670020227 dimer interface [polypeptide binding]; other site 339670020228 substrate binding site [chemical binding]; other site 339670020229 catalytic residues [active] 339670020230 putative sialic acid transporter; Region: 2A0112; TIGR00891 339670020231 Homeodomain-like domain; Region: HTH_23; pfam13384 339670020232 Winged helix-turn helix; Region: HTH_29; pfam13551 339670020233 Homeodomain-like domain; Region: HTH_32; pfam13565 339670020234 Integrase core domain; Region: rve; pfam00665 339670020235 Helix-turn-helix domain; Region: HTH_28; pfam13518 339670020236 Winged helix-turn helix; Region: HTH_29; pfam13551 339670020237 Homeodomain-like domain; Region: HTH_32; pfam13565 339670020238 GAD-like domain; Region: GAD-like; pfam08887 339670020239 Uncharacterized conserved protein [Function unknown]; Region: COG5620 339670020240 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 339670020241 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 339670020242 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 339670020243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670020244 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670020245 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 339670020246 putative effector binding pocket; other site 339670020247 dimerization interface [polypeptide binding]; other site 339670020248 Major Facilitator Superfamily; Region: MFS_1; pfam07690 339670020249 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670020250 putative substrate translocation pore; other site 339670020251 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 339670020252 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 339670020253 Beta-Casp domain; Region: Beta-Casp; smart01027 339670020254 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 339670020255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 339670020256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 339670020257 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 339670020258 substrate binding pocket [chemical binding]; other site 339670020259 dimerization interface [polypeptide binding]; other site 339670020260 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 339670020261 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 339670020262 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 339670020263 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 339670020264 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 339670020265 active site 339670020266 metal binding site [ion binding]; metal-binding site 339670020267 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 339670020268 active site 339670020269 catalytic site [active] 339670020270 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 339670020271 CoA-transferase family III; Region: CoA_transf_3; pfam02515 339670020272 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 339670020273 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 339670020274 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 339670020275 shikimate binding site; other site 339670020276 NAD(P) binding site [chemical binding]; other site 339670020277 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 339670020278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 339670020279 putative PBP binding loops; other site 339670020280 dimer interface [polypeptide binding]; other site 339670020281 ABC-ATPase subunit interface; other site 339670020282 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 339670020283 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 339670020284 Walker A/P-loop; other site 339670020285 ATP binding site [chemical binding]; other site 339670020286 Q-loop/lid; other site 339670020287 ABC transporter signature motif; other site 339670020288 Walker B; other site 339670020289 D-loop; other site 339670020290 H-loop/switch region; other site 339670020291 NMT1-like family; Region: NMT1_2; pfam13379 339670020292 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 339670020293 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 339670020294 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 339670020295 active site 339670020296 iron coordination sites [ion binding]; other site 339670020297 substrate binding pocket [chemical binding]; other site 339670020298 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 339670020299 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 339670020300 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 339670020301 dimer interface [polypeptide binding]; other site 339670020302 phosphorylation site [posttranslational modification] 339670020303 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 339670020304 ATP binding site [chemical binding]; other site 339670020305 Mg2+ binding site [ion binding]; other site 339670020306 G-X-G motif; other site 339670020307 Response regulator receiver domain; Region: Response_reg; pfam00072 339670020308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 339670020309 active site 339670020310 phosphorylation site [posttranslational modification] 339670020311 intermolecular recognition site; other site 339670020312 dimerization interface [polypeptide binding]; other site 339670020313 MgtC family; Region: MgtC; pfam02308 339670020314 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 339670020315 non-specific DNA binding site [nucleotide binding]; other site 339670020316 salt bridge; other site 339670020317 sequence-specific DNA binding site [nucleotide binding]; other site 339670020318 HipA N-terminal domain; Region: Couple_hipA; pfam13657 339670020319 HipA-like N-terminal domain; Region: HipA_N; pfam07805 339670020320 HipA-like C-terminal domain; Region: HipA_C; pfam07804 339670020321 oxidoreductase; Provisional; Region: PRK06196 339670020322 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 339670020323 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 339670020324 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 339670020325 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 339670020326 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 339670020327 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 339670020328 putative TOMM peptide; Region: TOMM_nitrile_2; TIGR04351 339670020329 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 339670020330 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 339670020331 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 339670020332 amidase; Provisional; Region: PRK07235 339670020333 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 339670020334 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 339670020335 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 339670020336 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 339670020337 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 339670020338 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 339670020339 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 339670020340 S-adenosylmethionine binding site [chemical binding]; other site 339670020341 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 339670020342 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 339670020343 PhnA protein; Region: PhnA; pfam03831 339670020344 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 339670020345 regulatory protein interface [polypeptide binding]; other site 339670020346 regulatory phosphorylation site [posttranslational modification]; other site 339670020347 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 339670020348 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 339670020349 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670020350 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 339670020351 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 339670020352 putative substrate translocation pore; other site 339670020353 HlyD family secretion protein; Region: HlyD; pfam00529 339670020354 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670020355 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670020356 BON domain; Region: BON; pfam04972 339670020357 FRG domain; Region: FRG; pfam08867 339670020358 Domain of unknown function (DUF305); Region: DUF305; cl17794 339670020359 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 339670020360 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 339670020361 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 339670020362 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 339670020363 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_3; cd03328 339670020364 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 339670020365 putative active site pocket [active] 339670020366 putative metal binding site [ion binding]; other site 339670020367 thiamine pyrophosphate protein; Provisional; Region: PRK08273 339670020368 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 339670020369 PYR/PP interface [polypeptide binding]; other site 339670020370 dimer interface [polypeptide binding]; other site 339670020371 tetramer interface [polypeptide binding]; other site 339670020372 TPP binding site [chemical binding]; other site 339670020373 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 339670020374 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 339670020375 TPP-binding site [chemical binding]; other site 339670020376 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 339670020377 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 339670020378 short chain dehydrogenase; Provisional; Region: PRK09072 339670020379 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 339670020380 putative NAD(P) binding site [chemical binding]; other site 339670020381 active site 339670020382 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 339670020383 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 339670020384 Cytochrome c; Region: Cytochrom_C; pfam00034 339670020385 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 339670020386 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 339670020387 D-pathway; other site 339670020388 Putative ubiquinol binding site [chemical binding]; other site 339670020389 Low-spin heme (heme b) binding site [chemical binding]; other site 339670020390 Putative water exit pathway; other site 339670020391 Binuclear center (heme o3/CuB) [ion binding]; other site 339670020392 K-pathway; other site 339670020393 Putative proton exit pathway; other site 339670020394 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 339670020395 Subunit I/III interface [polypeptide binding]; other site 339670020396 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670020397 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 339670020398 Cytochrome c; Region: Cytochrom_C; pfam00034 339670020399 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 339670020400 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 339670020401 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 339670020402 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 339670020403 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 339670020404 HlyD family secretion protein; Region: HlyD_3; pfam13437 339670020405 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 339670020406 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 339670020407 homotrimer interaction site [polypeptide binding]; other site 339670020408 putative active site [active] 339670020409 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 339670020410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 339670020411 NAD(P) binding site [chemical binding]; other site 339670020412 active site 339670020413 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 339670020414 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 339670020415 catalytic loop [active] 339670020416 iron binding site [ion binding]; other site 339670020417 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 339670020418 FAD binding pocket [chemical binding]; other site 339670020419 FAD binding motif [chemical binding]; other site 339670020420 phosphate binding motif [ion binding]; other site 339670020421 beta-alpha-beta structure motif; other site 339670020422 NAD binding pocket [chemical binding]; other site 339670020423 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 339670020424 inter-subunit interface; other site 339670020425 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 339670020426 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 339670020427 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 339670020428 putative alpha subunit interface [polypeptide binding]; other site 339670020429 putative active site [active] 339670020430 putative substrate binding site [chemical binding]; other site 339670020431 Fe binding site [ion binding]; other site 339670020432 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 339670020433 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 339670020434 dimer interface [polypeptide binding]; other site 339670020435 active site 339670020436 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 339670020437 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 339670020438 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 339670020439 octamer interface [polypeptide binding]; other site 339670020440 active site 339670020441 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 339670020442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 339670020443 Coenzyme A binding pocket [chemical binding]; other site