-- dump date 20140619_014533 -- class Genbank::misc_feature -- table misc_feature_note -- id note 884204000001 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 884204000002 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 884204000003 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 884204000004 Uncharacterized conserved protein [Function unknown]; Region: COG4121 884204000005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 884204000006 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 884204000007 IHF dimer interface [polypeptide binding]; other site 884204000008 IHF - DNA interface [nucleotide binding]; other site 884204000009 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 884204000010 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 884204000011 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 884204000012 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 884204000013 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 884204000014 N-acetyl-D-glucosamine binding site [chemical binding]; other site 884204000015 catalytic residue [active] 884204000016 type II secretion system protein D; Region: type_II_gspD; TIGR02517 884204000017 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204000018 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204000019 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204000020 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 884204000021 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 884204000022 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 884204000023 type II secretion system protein E; Region: type_II_gspE; TIGR02533 884204000024 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 884204000025 Walker A motif; other site 884204000026 ATP binding site [chemical binding]; other site 884204000027 Walker B motif; other site 884204000028 type II secretion system protein F; Region: GspF; TIGR02120 884204000029 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204000030 Ceramidase; Region: Ceramidase; pfam05875 884204000031 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204000032 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 884204000033 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 884204000034 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 884204000035 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 884204000036 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 884204000037 Type II transport protein GspH; Region: GspH; pfam12019 884204000038 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 884204000039 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 884204000040 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 884204000041 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 884204000042 GspL periplasmic domain; Region: GspL_C; pfam12693 884204000043 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 884204000044 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 884204000045 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204000046 MarR family; Region: MarR_2; cl17246 884204000047 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 884204000048 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 884204000049 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 884204000050 putative substrate translocation pore; other site 884204000051 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 884204000052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204000053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204000054 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 884204000055 putative dimerization interface [polypeptide binding]; other site 884204000056 LrgA family; Region: LrgA; pfam03788 884204000057 LrgB-like family; Region: LrgB; cl00596 884204000058 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 884204000059 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07718 884204000060 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 884204000061 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 884204000062 flagellar motor switch protein; Validated; Region: fliN; PRK05698 884204000063 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 884204000064 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 884204000065 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 884204000066 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 884204000067 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 884204000068 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 884204000069 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 884204000070 DNA binding residues [nucleotide binding] 884204000071 putative dimer interface [polypeptide binding]; other site 884204000072 putative metal binding residues [ion binding]; other site 884204000073 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204000074 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 884204000075 S-adenosylmethionine binding site [chemical binding]; other site 884204000076 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 884204000077 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 884204000078 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 884204000079 membrane-bound complex binding site; other site 884204000080 hinge residues; other site 884204000081 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 884204000082 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 884204000083 Walker A/P-loop; other site 884204000084 ATP binding site [chemical binding]; other site 884204000085 Q-loop/lid; other site 884204000086 ABC transporter signature motif; other site 884204000087 Walker B; other site 884204000088 D-loop; other site 884204000089 H-loop/switch region; other site 884204000090 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 884204000091 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 884204000092 dimer interface [polypeptide binding]; other site 884204000093 conserved gate region; other site 884204000094 putative PBP binding loops; other site 884204000095 ABC-ATPase subunit interface; other site 884204000096 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 884204000097 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204000098 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 884204000099 dimer interface [polypeptide binding]; other site 884204000100 phosphorylation site [posttranslational modification] 884204000101 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 884204000102 ATP binding site [chemical binding]; other site 884204000103 Mg2+ binding site [ion binding]; other site 884204000104 G-X-G motif; other site 884204000105 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 884204000106 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 884204000107 active site 884204000108 phosphorylation site [posttranslational modification] 884204000109 intermolecular recognition site; other site 884204000110 dimerization interface [polypeptide binding]; other site 884204000111 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 884204000112 DNA binding site [nucleotide binding] 884204000113 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204000114 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 884204000115 trimer interface [polypeptide binding]; other site 884204000116 eyelet of channel; other site 884204000117 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 884204000118 DNA methylase; Region: N6_N4_Mtase; pfam01555 884204000119 DNA methylase; Region: N6_N4_Mtase; cl17433 884204000120 Restriction endonuclease [Defense mechanisms]; Region: COG3587 884204000121 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 884204000122 ATP binding site [chemical binding]; other site 884204000123 putative Mg++ binding site [ion binding]; other site 884204000124 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204000125 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 884204000126 trimer interface [polypeptide binding]; other site 884204000127 eyelet of channel; other site 884204000128 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 884204000129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204000130 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 884204000131 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 884204000132 Walker A/P-loop; other site 884204000133 ATP binding site [chemical binding]; other site 884204000134 Q-loop/lid; other site 884204000135 ABC transporter signature motif; other site 884204000136 Walker B; other site 884204000137 D-loop; other site 884204000138 H-loop/switch region; other site 884204000139 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 884204000140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204000141 Walker A/P-loop; other site 884204000142 ATP binding site [chemical binding]; other site 884204000143 Q-loop/lid; other site 884204000144 ABC transporter signature motif; other site 884204000145 Walker B; other site 884204000146 D-loop; other site 884204000147 H-loop/switch region; other site 884204000148 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 884204000149 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 884204000150 TM-ABC transporter signature motif; other site 884204000151 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 884204000152 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204000153 TM-ABC transporter signature motif; other site 884204000154 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 884204000155 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 884204000156 putative ligand binding site [chemical binding]; other site 884204000157 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 884204000158 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 884204000159 NAD(P) binding site [chemical binding]; other site 884204000160 catalytic residues [active] 884204000161 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 884204000162 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 884204000163 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 884204000164 classical (c) SDRs; Region: SDR_c; cd05233 884204000165 NAD(P) binding site [chemical binding]; other site 884204000166 active site 884204000167 choline dehydrogenase; Validated; Region: PRK02106 884204000168 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 884204000169 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 884204000170 Predicted transcriptional regulators [Transcription]; Region: COG1695 884204000171 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 884204000172 Predicted membrane protein [Function unknown]; Region: COG4709 884204000173 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 884204000174 Fatty acid desaturase; Region: FA_desaturase; pfam00487 884204000175 putative di-iron ligands [ion binding]; other site 884204000176 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 884204000177 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 884204000178 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 884204000179 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 884204000180 conserved cys residue [active] 884204000181 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204000182 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204000183 active site 884204000184 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 884204000185 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 884204000186 dimer interface [polypeptide binding]; other site 884204000187 active site 884204000188 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 884204000189 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 884204000190 substrate binding site [chemical binding]; other site 884204000191 oxyanion hole (OAH) forming residues; other site 884204000192 trimer interface [polypeptide binding]; other site 884204000193 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 884204000194 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 884204000195 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 884204000196 CoA-transferase family III; Region: CoA_transf_3; pfam02515 884204000197 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 884204000198 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 884204000199 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204000200 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 884204000201 DNA binding residues [nucleotide binding] 884204000202 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 884204000203 putative heme binding pocket [chemical binding]; other site 884204000204 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 884204000205 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 884204000206 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 884204000207 ATP binding site [chemical binding]; other site 884204000208 Mg2+ binding site [ion binding]; other site 884204000209 G-X-G motif; other site 884204000210 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 884204000211 anchoring element; other site 884204000212 dimer interface [polypeptide binding]; other site 884204000213 ATP binding site [chemical binding]; other site 884204000214 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 884204000215 active site 884204000216 putative metal-binding site [ion binding]; other site 884204000217 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 884204000218 DNA polymerase III subunit beta; Validated; Region: PRK05643 884204000219 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 884204000220 putative DNA binding surface [nucleotide binding]; other site 884204000221 dimer interface [polypeptide binding]; other site 884204000222 beta-clamp/clamp loader binding surface; other site 884204000223 beta-clamp/translesion DNA polymerase binding surface; other site 884204000224 DnaA N-terminal domain; Region: DnaA_N; pfam11638 884204000225 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 884204000226 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 884204000227 Walker A motif; other site 884204000228 ATP binding site [chemical binding]; other site 884204000229 Walker B motif; other site 884204000230 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 884204000231 arginine finger; other site 884204000232 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 884204000233 DnaA box-binding interface [nucleotide binding]; other site 884204000234 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 884204000235 Ribonuclease P; Region: Ribonuclease_P; cl00457 884204000236 hypothetical protein; Validated; Region: PRK00041 884204000237 membrane protein insertase; Provisional; Region: PRK01318 884204000238 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 884204000239 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 884204000240 sequence-specific DNA binding site [nucleotide binding]; other site 884204000241 salt bridge; other site 884204000242 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 884204000243 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 884204000244 trmE is a tRNA modification GTPase; Region: trmE; cd04164 884204000245 G1 box; other site 884204000246 GTP/Mg2+ binding site [chemical binding]; other site 884204000247 Switch I region; other site 884204000248 G2 box; other site 884204000249 Switch II region; other site 884204000250 G3 box; other site 884204000251 G4 box; other site 884204000252 G5 box; other site 884204000253 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 884204000254 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 884204000255 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 884204000256 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 884204000257 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 884204000258 YaeQ protein; Region: YaeQ; pfam07152 884204000259 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 884204000260 dimer interface [polypeptide binding]; other site 884204000261 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204000262 metal binding site [ion binding]; metal-binding site 884204000263 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 884204000264 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 884204000265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204000266 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204000267 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 884204000268 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 884204000269 DNA binding site [nucleotide binding] 884204000270 active site 884204000271 AlkA N-terminal domain; Region: AlkA_N; pfam06029 884204000272 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 884204000273 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 884204000274 minor groove reading motif; other site 884204000275 helix-hairpin-helix signature motif; other site 884204000276 substrate binding pocket [chemical binding]; other site 884204000277 active site 884204000278 glutamate--cysteine ligase; Provisional; Region: PRK02107 884204000279 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 884204000280 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204000281 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 884204000282 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 884204000283 DNA binding residues [nucleotide binding] 884204000284 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 884204000285 dimer interface [polypeptide binding]; other site 884204000286 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204000287 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204000288 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 884204000289 putative effector binding pocket; other site 884204000290 dimerization interface [polypeptide binding]; other site 884204000291 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 884204000292 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 884204000293 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 884204000294 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 884204000295 active site 884204000296 metal binding site [ion binding]; metal-binding site 884204000297 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 884204000298 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 884204000299 putative active site; other site 884204000300 catalytic triad [active] 884204000301 putative dimer interface [polypeptide binding]; other site 884204000302 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 884204000303 SIR2-like domain; Region: SIR2_2; pfam13289 884204000304 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 884204000305 CoenzymeA binding site [chemical binding]; other site 884204000306 subunit interaction site [polypeptide binding]; other site 884204000307 PHB binding site; other site 884204000308 Patatin-like phospholipase; Region: Patatin; pfam01734 884204000309 active site 884204000310 nucleophile elbow; other site 884204000311 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 884204000312 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 884204000313 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 884204000314 dimerization interface [polypeptide binding]; other site 884204000315 NAD binding site [chemical binding]; other site 884204000316 ligand binding site [chemical binding]; other site 884204000317 catalytic site [active] 884204000318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204000319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204000320 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 884204000321 putative effector binding pocket; other site 884204000322 dimerization interface [polypeptide binding]; other site 884204000323 DNA topoisomerase III; Validated; Region: PRK08173 884204000324 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 884204000325 active site 884204000326 putative interdomain interaction site [polypeptide binding]; other site 884204000327 putative metal-binding site [ion binding]; other site 884204000328 putative nucleotide binding site [chemical binding]; other site 884204000329 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 884204000330 domain I; other site 884204000331 DNA binding groove [nucleotide binding] 884204000332 phosphate binding site [ion binding]; other site 884204000333 domain II; other site 884204000334 domain III; other site 884204000335 nucleotide binding site [chemical binding]; other site 884204000336 catalytic site [active] 884204000337 domain IV; other site 884204000338 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 884204000339 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 884204000340 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 884204000341 catalytic residues [active] 884204000342 DNA protecting protein DprA; Region: dprA; TIGR00732 884204000343 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 884204000344 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 884204000345 active site 884204000346 catalytic residues [active] 884204000347 metal binding site [ion binding]; metal-binding site 884204000348 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 884204000349 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 884204000350 putative active site [active] 884204000351 substrate binding site [chemical binding]; other site 884204000352 putative cosubstrate binding site; other site 884204000353 catalytic site [active] 884204000354 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 884204000355 substrate binding site [chemical binding]; other site 884204000356 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204000357 M48 family peptidase; Provisional; Region: PRK03001 884204000358 16S rRNA methyltransferase B; Provisional; Region: PRK10901 884204000359 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 884204000360 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 884204000361 S-adenosylmethionine binding site [chemical binding]; other site 884204000362 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 884204000363 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 884204000364 dimerization interface [polypeptide binding]; other site 884204000365 PAS domain; Region: PAS; smart00091 884204000366 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 884204000367 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 884204000368 dimer interface [polypeptide binding]; other site 884204000369 phosphorylation site [posttranslational modification] 884204000370 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 884204000371 ATP binding site [chemical binding]; other site 884204000372 Mg2+ binding site [ion binding]; other site 884204000373 G-X-G motif; other site 884204000374 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 884204000375 Response regulator receiver domain; Region: Response_reg; pfam00072 884204000376 active site 884204000377 phosphorylation site [posttranslational modification] 884204000378 intermolecular recognition site; other site 884204000379 dimerization interface [polypeptide binding]; other site 884204000380 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 884204000381 integrase; Provisional; Region: int; PHA02601 884204000382 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 884204000383 active site 884204000384 DNA binding site [nucleotide binding] 884204000385 Int/Topo IB signature motif; other site 884204000386 DNA primase domain-containing protein; Region: PHA02415 884204000387 CHC2 zinc finger; Region: zf-CHC2; cl17510 884204000388 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 884204000389 active site 884204000390 metal binding site [ion binding]; metal-binding site 884204000391 interdomain interaction site; other site 884204000392 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 884204000393 BRO family, N-terminal domain; Region: Bro-N; smart01040 884204000394 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 884204000395 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 884204000396 sequence-specific DNA binding site [nucleotide binding]; other site 884204000397 salt bridge; other site 884204000398 tail protein; Provisional; Region: D; PHA02561 884204000399 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 884204000400 AAA domain; Region: AAA_27; pfam13514 884204000401 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 884204000402 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 884204000403 major tail tube protein; Provisional; Region: FII; PHA02600 884204000404 major tail sheath protein; Provisional; Region: FI; PHA02560 884204000405 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 884204000406 Phage Tail Collar Domain; Region: Collar; pfam07484 884204000407 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 884204000408 baseplate assembly protein; Provisional; Region: J; PHA02568 884204000409 baseplate wedge subunit; Provisional; Region: W; PHA02516 884204000410 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 884204000411 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 884204000412 hypothetical protein; Region: PHA02416 884204000413 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 884204000414 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 884204000415 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 884204000416 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 884204000417 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 884204000418 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 884204000419 Protein of unknown function (DUF754); Region: DUF754; pfam05449 884204000420 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 884204000421 hypothetical protein; Region: PHA02417 884204000422 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 884204000423 terminase endonuclease subunit; Provisional; Region: M; PHA02537 884204000424 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 884204000425 capsid protein; Provisional; Region: N; PHA02538 884204000426 capsid-scaffolding protein; Provisional; Region: O; PHA02529 884204000427 terminase ATPase subunit; Provisional; Region: P; PHA02535 884204000428 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 884204000429 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 884204000430 portal vertex protein; Provisional; Region: Q; PHA02536 884204000431 Phage portal protein; Region: Phage_portal; pfam04860 884204000432 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 884204000433 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 884204000434 Predicted ATPase [General function prediction only]; Region: COG4637 884204000435 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204000436 Walker A/P-loop; other site 884204000437 ATP binding site [chemical binding]; other site 884204000438 Baseplate J-like protein; Region: Baseplate_J; cl01294 884204000439 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 884204000440 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 884204000441 DNA methylase; Region: N6_N4_Mtase; pfam01555 884204000442 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 884204000443 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 884204000444 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 884204000445 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 884204000446 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 884204000447 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 884204000448 TPR repeat; Region: TPR_11; pfam13414 884204000449 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 884204000450 TPR motif; other site 884204000451 binding surface 884204000452 Protein of unknown function (DUF770); Region: DUF770; pfam05591 884204000453 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 884204000454 Protein of unknown function (DUF877); Region: DUF877; pfam05943 884204000455 Protein of unknown function (DUF796); Region: DUF796; pfam05638 884204000456 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 884204000457 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 884204000458 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 884204000459 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 884204000460 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 884204000461 Clp amino terminal domain; Region: Clp_N; pfam02861 884204000462 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 884204000463 Walker A motif; other site 884204000464 ATP binding site [chemical binding]; other site 884204000465 Walker B motif; other site 884204000466 arginine finger; other site 884204000467 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 884204000468 Walker A motif; other site 884204000469 ATP binding site [chemical binding]; other site 884204000470 Walker B motif; other site 884204000471 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 884204000472 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 884204000473 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 884204000474 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 884204000475 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204000476 ligand binding site [chemical binding]; other site 884204000477 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 884204000478 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 884204000479 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 884204000480 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 884204000481 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 884204000482 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 884204000483 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 884204000484 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 884204000485 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 884204000486 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_C39C; cd02419 884204000487 putative active site [active] 884204000488 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 884204000489 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 884204000490 Walker A/P-loop; other site 884204000491 ATP binding site [chemical binding]; other site 884204000492 Q-loop/lid; other site 884204000493 ABC transporter signature motif; other site 884204000494 Walker B; other site 884204000495 D-loop; other site 884204000496 H-loop/switch region; other site 884204000497 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 884204000498 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204000499 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204000500 Peptidase family M1; Region: Peptidase_M1; pfam01433 884204000501 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 884204000502 Zn binding site [ion binding]; other site 884204000503 Water Stress and Hypersensitive response; Region: WHy; smart00769 884204000504 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 884204000505 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 884204000506 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 884204000507 S-adenosylmethionine binding site [chemical binding]; other site 884204000508 Methyltransferase domain; Region: Methyltransf_32; pfam13679 884204000509 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204000510 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 884204000511 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204000512 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204000513 D-galactonate transporter; Region: 2A0114; TIGR00893 884204000514 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 884204000515 putative substrate translocation pore; other site 884204000516 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 884204000517 putative FMN binding site [chemical binding]; other site 884204000518 putative chaperone; Provisional; Region: PRK11678 884204000519 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 884204000520 nucleotide binding site [chemical binding]; other site 884204000521 putative NEF/HSP70 interaction site [polypeptide binding]; other site 884204000522 SBD interface [polypeptide binding]; other site 884204000523 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 884204000524 DNA-binding site [nucleotide binding]; DNA binding site 884204000525 RNA-binding motif; other site 884204000526 amino acid transporter; Region: 2A0306; TIGR00909 884204000527 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 884204000528 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 884204000529 putative active site [active] 884204000530 metal binding site [ion binding]; metal-binding site 884204000531 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 884204000532 Flavoprotein; Region: Flavoprotein; pfam02441 884204000533 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 884204000534 putative GSH binding site [chemical binding]; other site 884204000535 catalytic residues [active] 884204000536 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 884204000537 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 884204000538 S-adenosylmethionine binding site [chemical binding]; other site 884204000539 peptide chain release factor 1; Validated; Region: prfA; PRK00591 884204000540 This domain is found in peptide chain release factors; Region: PCRF; smart00937 884204000541 RF-1 domain; Region: RF-1; pfam00472 884204000542 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 884204000543 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 884204000544 tRNA; other site 884204000545 putative tRNA binding site [nucleotide binding]; other site 884204000546 putative NADP binding site [chemical binding]; other site 884204000547 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 884204000548 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 884204000549 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 884204000550 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 884204000551 active site 884204000552 Isochorismatase family; Region: Isochorismatase; pfam00857 884204000553 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 884204000554 catalytic triad [active] 884204000555 conserved cis-peptide bond; other site 884204000556 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 884204000557 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 884204000558 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 884204000559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204000560 Walker A/P-loop; other site 884204000561 ATP binding site [chemical binding]; other site 884204000562 Q-loop/lid; other site 884204000563 ABC transporter signature motif; other site 884204000564 Walker B; other site 884204000565 D-loop; other site 884204000566 H-loop/switch region; other site 884204000567 ABC transporter; Region: ABC_tran_2; pfam12848 884204000568 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 884204000569 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 884204000570 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 884204000571 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 884204000572 active site 884204000573 catalytic site [active] 884204000574 Protein of unknown function (DUF419); Region: DUF419; cl15265 884204000575 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 884204000576 Helix-turn-helix domain; Region: HTH_18; pfam12833 884204000577 NADH dehydrogenase subunit B; Validated; Region: PRK06411 884204000578 GTP-binding protein YchF; Reviewed; Region: PRK09601 884204000579 YchF GTPase; Region: YchF; cd01900 884204000580 G1 box; other site 884204000581 GTP/Mg2+ binding site [chemical binding]; other site 884204000582 Switch I region; other site 884204000583 G2 box; other site 884204000584 Switch II region; other site 884204000585 G3 box; other site 884204000586 G4 box; other site 884204000587 G5 box; other site 884204000588 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 884204000589 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 884204000590 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 884204000591 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 884204000592 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 884204000593 dimerization domain [polypeptide binding]; other site 884204000594 dimer interface [polypeptide binding]; other site 884204000595 catalytic residues [active] 884204000596 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 884204000597 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 884204000598 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 884204000599 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 884204000600 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 884204000601 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 884204000602 ligand binding site [chemical binding]; other site 884204000603 active site 884204000604 UGI interface [polypeptide binding]; other site 884204000605 catalytic site [active] 884204000606 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 884204000607 putative active site [active] 884204000608 putative metal binding residues [ion binding]; other site 884204000609 signature motif; other site 884204000610 putative triphosphate binding site [ion binding]; other site 884204000611 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 884204000612 active site 884204000613 ribulose/triose binding site [chemical binding]; other site 884204000614 phosphate binding site [ion binding]; other site 884204000615 substrate (anthranilate) binding pocket [chemical binding]; other site 884204000616 product (indole) binding pocket [chemical binding]; other site 884204000617 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 884204000618 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 884204000619 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 884204000620 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 884204000621 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 884204000622 glutamine binding [chemical binding]; other site 884204000623 catalytic triad [active] 884204000624 anthranilate synthase component I; Provisional; Region: PRK13565 884204000625 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 884204000626 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 884204000627 phosphoglycolate phosphatase; Provisional; Region: PRK13222 884204000628 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 884204000629 motif II; other site 884204000630 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 884204000631 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 884204000632 substrate binding site [chemical binding]; other site 884204000633 hexamer interface [polypeptide binding]; other site 884204000634 metal binding site [ion binding]; metal-binding site 884204000635 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 884204000636 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 884204000637 MltA specific insert domain; Region: MltA; smart00925 884204000638 3D domain; Region: 3D; pfam06725 884204000639 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 884204000640 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 884204000641 active site 884204000642 AMP binding site [chemical binding]; other site 884204000643 homodimer interface [polypeptide binding]; other site 884204000644 acyl-activating enzyme (AAE) consensus motif; other site 884204000645 CoA binding site [chemical binding]; other site 884204000646 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 884204000647 CoenzymeA binding site [chemical binding]; other site 884204000648 subunit interaction site [polypeptide binding]; other site 884204000649 PHB binding site; other site 884204000650 enoyl-CoA hydratase; Provisional; Region: PRK08140 884204000651 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 884204000652 substrate binding site [chemical binding]; other site 884204000653 oxyanion hole (OAH) forming residues; other site 884204000654 trimer interface [polypeptide binding]; other site 884204000655 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 884204000656 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 884204000657 dimer interface [polypeptide binding]; other site 884204000658 active site 884204000659 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 884204000660 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 884204000661 NAD(P) binding site [chemical binding]; other site 884204000662 catalytic residues [active] 884204000663 enoyl-CoA hydratase; Provisional; Region: PRK05862 884204000664 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 884204000665 substrate binding site [chemical binding]; other site 884204000666 oxyanion hole (OAH) forming residues; other site 884204000667 trimer interface [polypeptide binding]; other site 884204000668 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 884204000669 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 884204000670 putative molybdopterin cofactor binding site [chemical binding]; other site 884204000671 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 884204000672 putative molybdopterin cofactor binding site; other site 884204000673 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 884204000674 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 884204000675 acyl-activating enzyme (AAE) consensus motif; other site 884204000676 putative AMP binding site [chemical binding]; other site 884204000677 putative active site [active] 884204000678 putative CoA binding site [chemical binding]; other site 884204000679 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204000680 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 884204000681 trimer interface [polypeptide binding]; other site 884204000682 eyelet of channel; other site 884204000683 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 884204000684 diiron binding motif [ion binding]; other site 884204000685 cell division protein MraZ; Reviewed; Region: PRK00326 884204000686 MraZ protein; Region: MraZ; pfam02381 884204000687 MraZ protein; Region: MraZ; pfam02381 884204000688 MraW methylase family; Region: Methyltransf_5; cl17771 884204000689 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 884204000690 Cell division protein FtsL; Region: FtsL; pfam04999 884204000691 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 884204000692 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 884204000693 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 884204000694 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 884204000695 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 884204000696 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 884204000697 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 884204000698 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 884204000699 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 884204000700 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 884204000701 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 884204000702 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 884204000703 Mg++ binding site [ion binding]; other site 884204000704 putative catalytic motif [active] 884204000705 putative substrate binding site [chemical binding]; other site 884204000706 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 884204000707 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 884204000708 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 884204000709 cell division protein FtsW; Region: ftsW; TIGR02614 884204000710 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 884204000711 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 884204000712 active site 884204000713 homodimer interface [polypeptide binding]; other site 884204000714 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 884204000715 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 884204000716 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 884204000717 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 884204000718 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 884204000719 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 884204000720 ATP-grasp domain; Region: ATP-grasp_4; cl17255 884204000721 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 884204000722 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 884204000723 Cell division protein FtsQ; Region: FtsQ; pfam03799 884204000724 cell division protein FtsA; Region: ftsA; TIGR01174 884204000725 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 884204000726 nucleotide binding site [chemical binding]; other site 884204000727 Cell division protein FtsA; Region: FtsA; pfam14450 884204000728 cell division protein FtsZ; Validated; Region: PRK09330 884204000729 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 884204000730 nucleotide binding site [chemical binding]; other site 884204000731 SulA interaction site; other site 884204000732 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 884204000733 catalytic triad [active] 884204000734 dimer interface [polypeptide binding]; other site 884204000735 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 884204000736 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 884204000737 Protein of unknown function (DUF721); Region: DUF721; pfam05258 884204000738 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 884204000739 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 884204000740 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 884204000741 SEC-C motif; Region: SEC-C; pfam02810 884204000742 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 884204000743 heterotetramer interface [polypeptide binding]; other site 884204000744 active site pocket [active] 884204000745 cleavage site 884204000746 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 884204000747 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 884204000748 Walker A motif; other site 884204000749 ATP binding site [chemical binding]; other site 884204000750 Walker B motif; other site 884204000751 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 884204000752 active site 884204000753 8-oxo-dGMP binding site [chemical binding]; other site 884204000754 nudix motif; other site 884204000755 metal binding site [ion binding]; metal-binding site 884204000756 Domain of unknown function (DUF329); Region: DUF329; pfam03884 884204000757 hypothetical protein; Provisional; Region: PRK05287 884204000758 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 884204000759 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 884204000760 CoA-binding site [chemical binding]; other site 884204000761 ATP-binding [chemical binding]; other site 884204000762 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 884204000763 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 884204000764 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 884204000765 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 884204000766 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204000767 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204000768 Type II/IV secretion system protein; Region: T2SE; pfam00437 884204000769 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 884204000770 Walker A motif; other site 884204000771 ATP binding site [chemical binding]; other site 884204000772 Walker B motif; other site 884204000773 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 884204000774 Domain of unknown function DUF21; Region: DUF21; pfam01595 884204000775 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 884204000776 Transporter associated domain; Region: CorC_HlyC; smart01091 884204000777 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 884204000778 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 884204000779 substrate binding pocket [chemical binding]; other site 884204000780 chain length determination region; other site 884204000781 substrate-Mg2+ binding site; other site 884204000782 catalytic residues [active] 884204000783 aspartate-rich region 1; other site 884204000784 active site lid residues [active] 884204000785 aspartate-rich region 2; other site 884204000786 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 884204000787 GTPase CgtA; Reviewed; Region: obgE; PRK12298 884204000788 GTP1/OBG; Region: GTP1_OBG; pfam01018 884204000789 Obg GTPase; Region: Obg; cd01898 884204000790 G1 box; other site 884204000791 GTP/Mg2+ binding site [chemical binding]; other site 884204000792 Switch I region; other site 884204000793 G2 box; other site 884204000794 G3 box; other site 884204000795 Switch II region; other site 884204000796 G4 box; other site 884204000797 G5 box; other site 884204000798 gamma-glutamyl kinase; Provisional; Region: PRK05429 884204000799 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 884204000800 nucleotide binding site [chemical binding]; other site 884204000801 homotetrameric interface [polypeptide binding]; other site 884204000802 putative phosphate binding site [ion binding]; other site 884204000803 putative allosteric binding site; other site 884204000804 PUA domain; Region: PUA; pfam01472 884204000805 CNP1-like family; Region: CNP1; pfam08750 884204000806 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 884204000807 putative active site [active] 884204000808 Ap4A binding site [chemical binding]; other site 884204000809 nudix motif; other site 884204000810 putative metal binding site [ion binding]; other site 884204000811 prolyl-tRNA synthetase; Provisional; Region: PRK09194 884204000812 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 884204000813 dimer interface [polypeptide binding]; other site 884204000814 motif 1; other site 884204000815 active site 884204000816 motif 2; other site 884204000817 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 884204000818 putative deacylase active site [active] 884204000819 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 884204000820 active site 884204000821 motif 3; other site 884204000822 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 884204000823 anticodon binding site; other site 884204000824 MarC family integral membrane protein; Region: MarC; cl00919 884204000825 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204000826 active site 884204000827 signal recognition particle protein; Provisional; Region: PRK10867 884204000828 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 884204000829 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 884204000830 P loop; other site 884204000831 GTP binding site [chemical binding]; other site 884204000832 Signal peptide binding domain; Region: SRP_SPB; pfam02978 884204000833 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 884204000834 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 884204000835 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 884204000836 amidase catalytic site [active] 884204000837 Zn binding residues [ion binding]; other site 884204000838 substrate binding site [chemical binding]; other site 884204000839 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 884204000840 ATP cone domain; Region: ATP-cone; pfam03477 884204000841 Class I ribonucleotide reductase; Region: RNR_I; cd01679 884204000842 active site 884204000843 dimer interface [polypeptide binding]; other site 884204000844 catalytic residues [active] 884204000845 effector binding site; other site 884204000846 R2 peptide binding site; other site 884204000847 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 884204000848 dimer interface [polypeptide binding]; other site 884204000849 putative radical transfer pathway; other site 884204000850 diiron center [ion binding]; other site 884204000851 tyrosyl radical; other site 884204000852 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 884204000853 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 884204000854 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 884204000855 substrate binding site [chemical binding]; other site 884204000856 ATP binding site [chemical binding]; other site 884204000857 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 884204000858 dimer interface [polypeptide binding]; other site 884204000859 catalytic triad [active] 884204000860 peroxidatic and resolving cysteines [active] 884204000861 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 884204000862 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 884204000863 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 884204000864 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 884204000865 ATP-grasp domain; Region: ATP-grasp_4; cl17255 884204000866 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 884204000867 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 884204000868 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 884204000869 carboxyltransferase (CT) interaction site; other site 884204000870 biotinylation site [posttranslational modification]; other site 884204000871 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 884204000872 Dehydroquinase class II; Region: DHquinase_II; pfam01220 884204000873 active site 884204000874 trimer interface [polypeptide binding]; other site 884204000875 dimer interface [polypeptide binding]; other site 884204000876 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 884204000877 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 884204000878 catalytic residues [active] 884204000879 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 884204000880 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 884204000881 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 884204000882 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 884204000883 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 884204000884 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 884204000885 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 884204000886 RNB domain; Region: RNB; pfam00773 884204000887 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 884204000888 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 884204000889 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 884204000890 shikimate binding site; other site 884204000891 NAD(P) binding site [chemical binding]; other site 884204000892 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 884204000893 Transglycosylase; Region: Transgly; cl17702 884204000894 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 884204000895 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 884204000896 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204000897 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 884204000898 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204000899 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 884204000900 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 884204000901 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 884204000902 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 884204000903 active site 884204000904 intersubunit interface [polypeptide binding]; other site 884204000905 catalytic residue [active] 884204000906 short chain dehydrogenase; Provisional; Region: PRK07063 884204000907 classical (c) SDRs; Region: SDR_c; cd05233 884204000908 NAD(P) binding site [chemical binding]; other site 884204000909 active site 884204000910 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 884204000911 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 884204000912 ligand binding site [chemical binding]; other site 884204000913 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 884204000914 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 884204000915 Walker A/P-loop; other site 884204000916 ATP binding site [chemical binding]; other site 884204000917 Q-loop/lid; other site 884204000918 ABC transporter signature motif; other site 884204000919 Walker B; other site 884204000920 D-loop; other site 884204000921 H-loop/switch region; other site 884204000922 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 884204000923 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204000924 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 884204000925 TM-ABC transporter signature motif; other site 884204000926 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 884204000927 classical (c) SDRs; Region: SDR_c; cd05233 884204000928 NAD(P) binding site [chemical binding]; other site 884204000929 active site 884204000930 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 884204000931 active site 884204000932 catalytic residues [active] 884204000933 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 884204000934 active site 884204000935 dimer interface [polypeptide binding]; other site 884204000936 Competence-damaged protein; Region: CinA; pfam02464 884204000937 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 884204000938 tetramer interfaces [polypeptide binding]; other site 884204000939 binuclear metal-binding site [ion binding]; other site 884204000940 thiamine monophosphate kinase; Provisional; Region: PRK05731 884204000941 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 884204000942 ATP binding site [chemical binding]; other site 884204000943 dimerization interface [polypeptide binding]; other site 884204000944 malic enzyme; Reviewed; Region: PRK12862 884204000945 Malic enzyme, N-terminal domain; Region: malic; pfam00390 884204000946 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 884204000947 putative NAD(P) binding site [chemical binding]; other site 884204000948 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 884204000949 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 884204000950 active site 884204000951 barstar interaction site; other site 884204000952 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 884204000953 putative RNAase interaction site [polypeptide binding]; other site 884204000954 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 884204000955 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 884204000956 putative dimer interface [polypeptide binding]; other site 884204000957 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204000958 spermidine synthase; Provisional; Region: PRK00811 884204000959 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 884204000960 transketolase; Reviewed; Region: PRK12753 884204000961 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 884204000962 TPP-binding site [chemical binding]; other site 884204000963 dimer interface [polypeptide binding]; other site 884204000964 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 884204000965 PYR/PP interface [polypeptide binding]; other site 884204000966 dimer interface [polypeptide binding]; other site 884204000967 TPP binding site [chemical binding]; other site 884204000968 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 884204000969 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 884204000970 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 884204000971 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 884204000972 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 884204000973 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 884204000974 cyanate hydratase; Validated; Region: PRK02866 884204000975 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 884204000976 oligomer interface [polypeptide binding]; other site 884204000977 active site 884204000978 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 884204000979 active site clefts [active] 884204000980 zinc binding site [ion binding]; other site 884204000981 dimer interface [polypeptide binding]; other site 884204000982 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 884204000983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204000984 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 884204000985 dimerization interface [polypeptide binding]; other site 884204000986 Transcriptional regulators [Transcription]; Region: FadR; COG2186 884204000987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204000988 DNA-binding site [nucleotide binding]; DNA binding site 884204000989 FCD domain; Region: FCD; pfam07729 884204000990 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 884204000991 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 884204000992 allantoicase; Provisional; Region: PRK13257 884204000993 Allantoicase repeat; Region: Allantoicase; pfam03561 884204000994 Allantoicase repeat; Region: Allantoicase; pfam03561 884204000995 ureidoglycolate hydrolase; Provisional; Region: PRK13395 884204000996 ferric uptake regulator; Provisional; Region: fur; PRK09462 884204000997 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 884204000998 metal binding site 2 [ion binding]; metal-binding site 884204000999 putative DNA binding helix; other site 884204001000 metal binding site 1 [ion binding]; metal-binding site 884204001001 dimer interface [polypeptide binding]; other site 884204001002 structural Zn2+ binding site [ion binding]; other site 884204001003 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 884204001004 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 884204001005 dihydrodipicolinate reductase; Provisional; Region: PRK00048 884204001006 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 884204001007 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 884204001008 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 884204001009 TolR protein; Region: tolR; TIGR02801 884204001010 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 884204001011 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 884204001012 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 884204001013 HIGH motif; other site 884204001014 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 884204001015 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 884204001016 active site 884204001017 KMSKS motif; other site 884204001018 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 884204001019 tRNA binding surface [nucleotide binding]; other site 884204001020 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 884204001021 Lipopolysaccharide-assembly; Region: LptE; cl01125 884204001022 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 884204001023 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 884204001024 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 884204001025 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 884204001026 putative catalytic cysteine [active] 884204001027 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 884204001028 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 884204001029 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 884204001030 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 884204001031 putative active site [active] 884204001032 phosphogluconate dehydratase; Validated; Region: PRK09054 884204001033 6-phosphogluconate dehydratase; Region: edd; TIGR01196 884204001034 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 884204001035 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 884204001036 active site 884204001037 intersubunit interface [polypeptide binding]; other site 884204001038 catalytic residue [active] 884204001039 GntP family permease; Region: GntP_permease; pfam02447 884204001040 fructuronate transporter; Provisional; Region: PRK10034; cl15264 884204001041 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 884204001042 ATP-binding site [chemical binding]; other site 884204001043 Gluconate-6-phosphate binding site [chemical binding]; other site 884204001044 Shikimate kinase; Region: SKI; pfam01202 884204001045 adenylosuccinate lyase; Provisional; Region: PRK09285 884204001046 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 884204001047 tetramer interface [polypeptide binding]; other site 884204001048 active site 884204001049 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 884204001050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204001051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204001052 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 884204001053 dimerization interface [polypeptide binding]; other site 884204001054 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 884204001055 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 884204001056 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 884204001057 NAD(P) binding site [chemical binding]; other site 884204001058 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 884204001059 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 884204001060 substrate binding pocket [chemical binding]; other site 884204001061 membrane-bound complex binding site; other site 884204001062 hinge residues; other site 884204001063 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 884204001064 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 884204001065 dimer interface [polypeptide binding]; other site 884204001066 conserved gate region; other site 884204001067 putative PBP binding loops; other site 884204001068 ABC-ATPase subunit interface; other site 884204001069 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 884204001070 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 884204001071 dimer interface [polypeptide binding]; other site 884204001072 conserved gate region; other site 884204001073 putative PBP binding loops; other site 884204001074 ABC-ATPase subunit interface; other site 884204001075 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 884204001076 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 884204001077 Walker A/P-loop; other site 884204001078 ATP binding site [chemical binding]; other site 884204001079 Q-loop/lid; other site 884204001080 ABC transporter signature motif; other site 884204001081 Walker B; other site 884204001082 D-loop; other site 884204001083 H-loop/switch region; other site 884204001084 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 884204001085 oligomerisation interface [polypeptide binding]; other site 884204001086 mobile loop; other site 884204001087 roof hairpin; other site 884204001088 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 884204001089 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 884204001090 putative dimer interface [polypeptide binding]; other site 884204001091 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 884204001092 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 884204001093 putative dimer interface [polypeptide binding]; other site 884204001094 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 884204001095 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 884204001096 putative active site [active] 884204001097 putative dimer interface [polypeptide binding]; other site 884204001098 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 884204001099 active site 884204001100 substrate binding pocket [chemical binding]; other site 884204001101 dimer interface [polypeptide binding]; other site 884204001102 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 884204001103 OsmC-like protein; Region: OsmC; cl00767 884204001104 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 884204001105 23S rRNA interface [nucleotide binding]; other site 884204001106 L3 interface [polypeptide binding]; other site 884204001107 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 884204001108 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 884204001109 Cupin; Region: Cupin_6; pfam12852 884204001110 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204001111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204001112 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 884204001113 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 884204001114 C-terminal domain interface [polypeptide binding]; other site 884204001115 GSH binding site (G-site) [chemical binding]; other site 884204001116 dimer interface [polypeptide binding]; other site 884204001117 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 884204001118 N-terminal domain interface [polypeptide binding]; other site 884204001119 dimer interface [polypeptide binding]; other site 884204001120 substrate binding pocket (H-site) [chemical binding]; other site 884204001121 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 884204001122 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 884204001123 C-terminal domain interface [polypeptide binding]; other site 884204001124 GSH binding site (G-site) [chemical binding]; other site 884204001125 dimer interface [polypeptide binding]; other site 884204001126 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 884204001127 N-terminal domain interface [polypeptide binding]; other site 884204001128 putative dimer interface [polypeptide binding]; other site 884204001129 active site 884204001130 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 884204001131 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 884204001132 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 884204001133 active site 884204001134 HIGH motif; other site 884204001135 dimer interface [polypeptide binding]; other site 884204001136 KMSKS motif; other site 884204001137 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 884204001138 RNA binding surface [nucleotide binding]; other site 884204001139 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 884204001140 dimerization interface [polypeptide binding]; other site 884204001141 putative tRNAtyr binding site [nucleotide binding]; other site 884204001142 putative active site [active] 884204001143 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 884204001144 catalytic core [active] 884204001145 Putative ParB-like nuclease; Region: ParBc_2; cl17538 884204001146 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 884204001147 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 884204001148 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 884204001149 Walker A motif; other site 884204001150 ATP binding site [chemical binding]; other site 884204001151 Walker B motif; other site 884204001152 arginine finger; other site 884204001153 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 884204001154 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 884204001155 RuvA N terminal domain; Region: RuvA_N; pfam01330 884204001156 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 884204001157 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 884204001158 active site 884204001159 putative DNA-binding cleft [nucleotide binding]; other site 884204001160 dimer interface [polypeptide binding]; other site 884204001161 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 884204001162 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 884204001163 purine monophosphate binding site [chemical binding]; other site 884204001164 dimer interface [polypeptide binding]; other site 884204001165 putative catalytic residues [active] 884204001166 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 884204001167 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 884204001168 DNA-binding protein Fis; Provisional; Region: PRK01905 884204001169 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 884204001170 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 884204001171 FMN binding site [chemical binding]; other site 884204001172 active site 884204001173 catalytic residues [active] 884204001174 substrate binding site [chemical binding]; other site 884204001175 hypothetical protein; Provisional; Region: PRK06996 884204001176 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 884204001177 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 884204001178 proline aminopeptidase P II; Provisional; Region: PRK10879 884204001179 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 884204001180 active site 884204001181 putative glutathione S-transferase; Provisional; Region: PRK10357 884204001182 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 884204001183 putative C-terminal domain interface [polypeptide binding]; other site 884204001184 putative GSH binding site (G-site) [chemical binding]; other site 884204001185 putative dimer interface [polypeptide binding]; other site 884204001186 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 884204001187 dimer interface [polypeptide binding]; other site 884204001188 N-terminal domain interface [polypeptide binding]; other site 884204001189 putative substrate binding pocket (H-site) [chemical binding]; other site 884204001190 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 884204001191 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 884204001192 active site 884204001193 FMN binding site [chemical binding]; other site 884204001194 substrate binding site [chemical binding]; other site 884204001195 3Fe-4S cluster binding site [ion binding]; other site 884204001196 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 884204001197 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 884204001198 Ligand Binding Site [chemical binding]; other site 884204001199 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 884204001200 nudix motif; other site 884204001201 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 884204001202 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 884204001203 ligand binding site [chemical binding]; other site 884204001204 homodimer interface [polypeptide binding]; other site 884204001205 NAD(P) binding site [chemical binding]; other site 884204001206 trimer interface B [polypeptide binding]; other site 884204001207 trimer interface A [polypeptide binding]; other site 884204001208 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 884204001209 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 884204001210 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 884204001211 Predicted transcriptional regulator [Transcription]; Region: COG2378 884204001212 HTH domain; Region: HTH_11; pfam08279 884204001213 WYL domain; Region: WYL; pfam13280 884204001214 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 884204001215 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 884204001216 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 884204001217 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 884204001218 Site-specific recombinase; Region: SpecificRecomb; pfam10136 884204001219 Protein of unknown function (DUF330); Region: DUF330; pfam03886 884204001220 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 884204001221 mce related protein; Region: MCE; pfam02470 884204001222 mce related protein; Region: MCE; pfam02470 884204001223 Paraquat-inducible protein A; Region: PqiA; pfam04403 884204001224 Paraquat-inducible protein A; Region: PqiA; pfam04403 884204001225 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 884204001226 YceI-like domain; Region: YceI; smart00867 884204001227 Uncharacterized conserved protein [Function unknown]; Region: COG2353 884204001228 citrate-proton symporter; Provisional; Region: PRK15075 884204001229 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 884204001230 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 884204001231 Protein export membrane protein; Region: SecD_SecF; pfam02355 884204001232 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 884204001233 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 884204001234 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 884204001235 Protein export membrane protein; Region: SecD_SecF; cl14618 884204001236 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 884204001237 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 884204001238 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 884204001239 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 884204001240 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 884204001241 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 884204001242 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 884204001243 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 884204001244 generic binding surface II; other site 884204001245 ssDNA binding site; other site 884204001246 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 884204001247 ATP binding site [chemical binding]; other site 884204001248 putative Mg++ binding site [ion binding]; other site 884204001249 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 884204001250 nucleotide binding region [chemical binding]; other site 884204001251 ATP-binding site [chemical binding]; other site 884204001252 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204001253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204001254 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 884204001255 dimerization interface [polypeptide binding]; other site 884204001256 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 884204001257 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 884204001258 dimer interface [polypeptide binding]; other site 884204001259 active site 884204001260 heme binding site [chemical binding]; other site 884204001261 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 884204001262 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 884204001263 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 884204001264 dimerization interface [polypeptide binding]; other site 884204001265 DPS ferroxidase diiron center [ion binding]; other site 884204001266 ion pore; other site 884204001267 Predicted transcriptional regulators [Transcription]; Region: COG1733 884204001268 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 884204001269 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 884204001270 UbiA prenyltransferase family; Region: UbiA; pfam01040 884204001271 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 884204001272 active site 884204001273 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 884204001274 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 884204001275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204001276 DNA-binding site [nucleotide binding]; DNA binding site 884204001277 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 884204001278 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 884204001279 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 884204001280 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 884204001281 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 884204001282 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 884204001283 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204001284 Walker A/P-loop; other site 884204001285 ATP binding site [chemical binding]; other site 884204001286 Q-loop/lid; other site 884204001287 ABC transporter signature motif; other site 884204001288 Walker B; other site 884204001289 D-loop; other site 884204001290 H-loop/switch region; other site 884204001291 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 884204001292 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 884204001293 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204001294 Walker A/P-loop; other site 884204001295 ATP binding site [chemical binding]; other site 884204001296 Q-loop/lid; other site 884204001297 ABC transporter signature motif; other site 884204001298 Walker B; other site 884204001299 D-loop; other site 884204001300 H-loop/switch region; other site 884204001301 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 884204001302 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 884204001303 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 884204001304 active site 884204001305 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 884204001306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204001307 Walker A/P-loop; other site 884204001308 ATP binding site [chemical binding]; other site 884204001309 Q-loop/lid; other site 884204001310 ABC transporter signature motif; other site 884204001311 Walker B; other site 884204001312 D-loop; other site 884204001313 H-loop/switch region; other site 884204001314 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 884204001315 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 884204001316 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 884204001317 dimer interface [polypeptide binding]; other site 884204001318 conserved gate region; other site 884204001319 ABC-ATPase subunit interface; other site 884204001320 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 884204001321 pyrroline-5-carboxylate reductase; Region: PLN02688 884204001322 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 884204001323 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 884204001324 catalytic residue [active] 884204001325 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 884204001326 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 884204001327 Cysteine-rich domain; Region: CCG; pfam02754 884204001328 Cysteine-rich domain; Region: CCG; pfam02754 884204001329 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 884204001330 FAD binding domain; Region: FAD_binding_4; pfam01565 884204001331 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 884204001332 FAD binding domain; Region: FAD_binding_4; pfam01565 884204001333 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 884204001334 FAD binding domain; Region: FAD_binding_4; pfam01565 884204001335 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 884204001336 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 884204001337 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 884204001338 heme-binding site [chemical binding]; other site 884204001339 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 884204001340 FAD binding pocket [chemical binding]; other site 884204001341 FAD binding motif [chemical binding]; other site 884204001342 phosphate binding motif [ion binding]; other site 884204001343 beta-alpha-beta structure motif; other site 884204001344 NAD binding pocket [chemical binding]; other site 884204001345 Heme binding pocket [chemical binding]; other site 884204001346 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 884204001347 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 884204001348 protease TldD; Provisional; Region: tldD; PRK10735 884204001349 nitrilase; Region: PLN02798 884204001350 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 884204001351 putative active site [active] 884204001352 catalytic triad [active] 884204001353 dimer interface [polypeptide binding]; other site 884204001354 TIGR02099 family protein; Region: TIGR02099 884204001355 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 884204001356 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 884204001357 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 884204001358 metal binding triad; other site 884204001359 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 884204001360 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 884204001361 metal binding triad; other site 884204001362 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 884204001363 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 884204001364 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 884204001365 Walker A/P-loop; other site 884204001366 ATP binding site [chemical binding]; other site 884204001367 Q-loop/lid; other site 884204001368 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 884204001369 ABC transporter signature motif; other site 884204001370 Walker B; other site 884204001371 D-loop; other site 884204001372 H-loop/switch region; other site 884204001373 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 884204001374 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 884204001375 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 884204001376 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 884204001377 ferrochelatase; Reviewed; Region: hemH; PRK00035 884204001378 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 884204001379 C-terminal domain interface [polypeptide binding]; other site 884204001380 active site 884204001381 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 884204001382 active site 884204001383 N-terminal domain interface [polypeptide binding]; other site 884204001384 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 884204001385 RNA binding surface [nucleotide binding]; other site 884204001386 GrpE; Region: GrpE; pfam01025 884204001387 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 884204001388 dimer interface [polypeptide binding]; other site 884204001389 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 884204001390 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 884204001391 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 884204001392 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 884204001393 nucleotide binding site [chemical binding]; other site 884204001394 chaperone protein DnaJ; Provisional; Region: PRK10767 884204001395 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 884204001396 HSP70 interaction site [polypeptide binding]; other site 884204001397 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 884204001398 Zn binding sites [ion binding]; other site 884204001399 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 884204001400 dimer interface [polypeptide binding]; other site 884204001401 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 884204001402 chorismate binding enzyme; Region: Chorismate_bind; cl10555 884204001403 hypothetical protein; Provisional; Region: PRK07546 884204001404 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 884204001405 homodimer interface [polypeptide binding]; other site 884204001406 substrate-cofactor binding pocket; other site 884204001407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204001408 catalytic residue [active] 884204001409 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 884204001410 oligomerization interface [polypeptide binding]; other site 884204001411 active site 884204001412 metal binding site [ion binding]; metal-binding site 884204001413 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 884204001414 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 884204001415 Substrate-binding site [chemical binding]; other site 884204001416 Substrate specificity [chemical binding]; other site 884204001417 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 884204001418 catalytic center binding site [active] 884204001419 ATP binding site [chemical binding]; other site 884204001420 poly(A) polymerase; Region: pcnB; TIGR01942 884204001421 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 884204001422 active site 884204001423 NTP binding site [chemical binding]; other site 884204001424 metal binding triad [ion binding]; metal-binding site 884204001425 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 884204001426 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 884204001427 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 884204001428 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 884204001429 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 884204001430 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 884204001431 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 884204001432 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 884204001433 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 884204001434 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 884204001435 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 884204001436 ATP binding site [chemical binding]; other site 884204001437 Mg2+ binding site [ion binding]; other site 884204001438 G-X-G motif; other site 884204001439 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 884204001440 ATP binding site [chemical binding]; other site 884204001441 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 884204001442 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 884204001443 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 884204001444 mechanosensitive channel MscS; Provisional; Region: PRK10334 884204001445 Mechanosensitive ion channel; Region: MS_channel; pfam00924 884204001446 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 884204001447 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 884204001448 putative active site [active] 884204001449 putative dimer interface [polypeptide binding]; other site 884204001450 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 884204001451 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 884204001452 Substrate binding site; other site 884204001453 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 884204001454 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 884204001455 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 884204001456 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204001457 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 884204001458 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 884204001459 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 884204001460 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 884204001461 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 884204001462 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 884204001463 Walker A/P-loop; other site 884204001464 ATP binding site [chemical binding]; other site 884204001465 Q-loop/lid; other site 884204001466 ABC transporter signature motif; other site 884204001467 Walker B; other site 884204001468 D-loop; other site 884204001469 H-loop/switch region; other site 884204001470 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 884204001471 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204001472 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 884204001473 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204001474 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 884204001475 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 884204001476 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 884204001477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204001478 NAD(P) binding site [chemical binding]; other site 884204001479 active site 884204001480 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 884204001481 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 884204001482 NADP-binding site; other site 884204001483 homotetramer interface [polypeptide binding]; other site 884204001484 substrate binding site [chemical binding]; other site 884204001485 homodimer interface [polypeptide binding]; other site 884204001486 active site 884204001487 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 884204001488 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 884204001489 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 884204001490 dimer interface [polypeptide binding]; other site 884204001491 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 884204001492 active site 884204001493 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 884204001494 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 884204001495 Substrate binding site; other site 884204001496 Mg++ binding site; other site 884204001497 metal-binding site 884204001498 Mg++ binding site; other site 884204001499 metal-binding site 884204001500 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 884204001501 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 884204001502 active site 884204001503 motif I; other site 884204001504 motif II; other site 884204001505 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 884204001506 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 884204001507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204001508 NAD(P) binding site [chemical binding]; other site 884204001509 active site 884204001510 Sulfatase; Region: Sulfatase; pfam00884 884204001511 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 884204001512 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 884204001513 active site 884204001514 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 884204001515 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 884204001516 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204001517 Methyltransferase domain; Region: Methyltransf_12; pfam08242 884204001518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204001519 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 884204001520 Enoylreductase; Region: PKS_ER; smart00829 884204001521 NAD(P) binding site [chemical binding]; other site 884204001522 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 884204001523 KR domain; Region: KR; pfam08659 884204001524 putative NADP binding site [chemical binding]; other site 884204001525 active site 884204001526 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204001527 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: PRK13187 884204001528 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 884204001529 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 884204001530 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 884204001531 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204001532 catalytic residue [active] 884204001533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204001534 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 884204001535 active site 884204001536 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 884204001537 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 884204001538 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204001539 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204001540 CoA-binding domain; Region: CoA_binding_3; pfam13727 884204001541 Bacterial sugar transferase; Region: Bac_transf; pfam02397 884204001542 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 884204001543 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 884204001544 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 884204001545 Low molecular weight phosphatase family; Region: LMWPc; cd00115 884204001546 active site 884204001547 tyrosine kinase; Provisional; Region: PRK11519 884204001548 Chain length determinant protein; Region: Wzz; pfam02706 884204001549 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 884204001550 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 884204001551 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 884204001552 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 884204001553 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 884204001554 trimer interface [polypeptide binding]; other site 884204001555 active site 884204001556 substrate binding site [chemical binding]; other site 884204001557 CoA binding site [chemical binding]; other site 884204001558 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204001559 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 884204001560 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204001561 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 884204001562 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 884204001563 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 884204001564 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 884204001565 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 884204001566 active site 884204001567 motif I; other site 884204001568 motif II; other site 884204001569 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 884204001570 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 884204001571 putative active site [active] 884204001572 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 884204001573 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 884204001574 active site 884204001575 tetramer interface; other site 884204001576 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 884204001577 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 884204001578 Tetratricopeptide repeat; Region: TPR_6; pfam13174 884204001579 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 884204001580 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204001581 ligand binding site [chemical binding]; other site 884204001582 translocation protein TolB; Provisional; Region: tolB; PRK02889 884204001583 TolB amino-terminal domain; Region: TolB_N; pfam04052 884204001584 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 884204001585 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 884204001586 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 884204001587 TolA protein; Region: tolA_full; TIGR02794 884204001588 TonB C terminal; Region: TonB_2; pfam13103 884204001589 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 884204001590 TolR protein; Region: tolR; TIGR02801 884204001591 TolQ protein; Region: tolQ; TIGR02796 884204001592 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 884204001593 active site 884204001594 malonic semialdehyde reductase; Provisional; Region: PRK10538 884204001595 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 884204001596 putative NAD(P) binding site [chemical binding]; other site 884204001597 homodimer interface [polypeptide binding]; other site 884204001598 homotetramer interface [polypeptide binding]; other site 884204001599 active site 884204001600 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 884204001601 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 884204001602 dimer interface [polypeptide binding]; other site 884204001603 active site 884204001604 glycine-pyridoxal phosphate binding site [chemical binding]; other site 884204001605 folate binding site [chemical binding]; other site 884204001606 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 884204001607 ATP cone domain; Region: ATP-cone; pfam03477 884204001608 Type II transport protein GspH; Region: GspH; pfam12019 884204001609 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 884204001610 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 884204001611 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 884204001612 Predicted membrane protein [Function unknown]; Region: COG5393 884204001613 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 884204001614 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 884204001615 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 884204001616 dimer interface [polypeptide binding]; other site 884204001617 decamer (pentamer of dimers) interface [polypeptide binding]; other site 884204001618 catalytic triad [active] 884204001619 Transposase domain (DUF772); Region: DUF772; pfam05598 884204001620 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 884204001621 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 884204001622 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 884204001623 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204001624 FAD binding site [chemical binding]; other site 884204001625 substrate binding pocket [chemical binding]; other site 884204001626 catalytic base [active] 884204001627 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204001628 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 884204001629 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204001630 Uncharacterized conserved protein [Function unknown]; Region: COG3791 884204001631 EAL domain; Region: EAL; pfam00563 884204001632 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 884204001633 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 884204001634 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 884204001635 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 884204001636 benzoate transport; Region: 2A0115; TIGR00895 884204001637 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 884204001638 putative substrate translocation pore; other site 884204001639 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 884204001640 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 884204001641 fumarylacetoacetase; Region: PLN02856 884204001642 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 884204001643 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 884204001644 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 884204001645 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204001646 putative substrate translocation pore; other site 884204001647 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 884204001648 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 884204001649 putative substrate translocation pore; other site 884204001650 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 884204001651 putative FMN binding site [chemical binding]; other site 884204001652 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 884204001653 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 884204001654 putative ligand binding site [chemical binding]; other site 884204001655 putative NAD binding site [chemical binding]; other site 884204001656 catalytic site [active] 884204001657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204001658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204001659 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 884204001660 putative effector binding pocket; other site 884204001661 dimerization interface [polypeptide binding]; other site 884204001662 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 884204001663 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204001664 catalytic residue [active] 884204001665 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204001666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204001667 EamA-like transporter family; Region: EamA; pfam00892 884204001668 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 884204001669 EamA-like transporter family; Region: EamA; pfam00892 884204001670 major facilitator superfamily transporter; Provisional; Region: PRK05122 884204001671 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 884204001672 putative substrate translocation pore; other site 884204001673 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 884204001674 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 884204001675 catalytic loop [active] 884204001676 iron binding site [ion binding]; other site 884204001677 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 884204001678 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 884204001679 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 884204001680 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 884204001681 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 884204001682 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 884204001683 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 884204001684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 884204001685 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 884204001686 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 884204001687 N-terminal plug; other site 884204001688 ligand-binding site [chemical binding]; other site 884204001689 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 884204001690 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 884204001691 Walker A/P-loop; other site 884204001692 ATP binding site [chemical binding]; other site 884204001693 Q-loop/lid; other site 884204001694 ABC transporter signature motif; other site 884204001695 Walker B; other site 884204001696 D-loop; other site 884204001697 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 884204001698 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 884204001699 putative ligand binding residues [chemical binding]; other site 884204001700 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 884204001701 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 884204001702 ABC-ATPase subunit interface; other site 884204001703 dimer interface [polypeptide binding]; other site 884204001704 putative PBP binding regions; other site 884204001705 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204001706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204001707 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 884204001708 dimerization interface [polypeptide binding]; other site 884204001709 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 884204001710 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 884204001711 putative catalytic residue [active] 884204001712 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 884204001713 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 884204001714 BON domain; Region: BON; cl02771 884204001715 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 884204001716 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 884204001717 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 884204001718 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 884204001719 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 884204001720 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 884204001721 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 884204001722 putative substrate translocation pore; other site 884204001723 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 884204001724 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 884204001725 putative active site [active] 884204001726 catalytic site [active] 884204001727 putative metal binding site [ion binding]; other site 884204001728 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204001729 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204001730 Coenzyme A binding pocket [chemical binding]; other site 884204001731 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204001732 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 884204001733 non-specific DNA binding site [nucleotide binding]; other site 884204001734 salt bridge; other site 884204001735 sequence-specific DNA binding site [nucleotide binding]; other site 884204001736 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 884204001737 Predicted transcriptional regulators [Transcription]; Region: COG1733 884204001738 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 884204001739 dimerization interface [polypeptide binding]; other site 884204001740 putative DNA binding site [nucleotide binding]; other site 884204001741 putative Zn2+ binding site [ion binding]; other site 884204001742 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 884204001743 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 884204001744 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 884204001745 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 884204001746 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 884204001747 putative NAD(P) binding site [chemical binding]; other site 884204001748 Predicted transcriptional regulators [Transcription]; Region: COG1733 884204001749 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 884204001750 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 884204001751 oligomerisation interface [polypeptide binding]; other site 884204001752 mobile loop; other site 884204001753 roof hairpin; other site 884204001754 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 884204001755 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 884204001756 ring oligomerisation interface [polypeptide binding]; other site 884204001757 ATP/Mg binding site [chemical binding]; other site 884204001758 stacking interactions; other site 884204001759 hinge regions; other site 884204001760 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 884204001761 dimer interface [polypeptide binding]; other site 884204001762 substrate binding site [chemical binding]; other site 884204001763 ATP binding site [chemical binding]; other site 884204001764 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 884204001765 Rubredoxin; Region: Rubredoxin; pfam00301 884204001766 iron binding site [ion binding]; other site 884204001767 hypothetical protein; Validated; Region: PRK00228 884204001768 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 884204001769 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204001770 active site 884204001771 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 884204001772 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 884204001773 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 884204001774 dihydroorotase; Provisional; Region: PRK07627 884204001775 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 884204001776 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 884204001777 active site 884204001778 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 884204001779 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 884204001780 putative acyl-acceptor binding pocket; other site 884204001781 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 884204001782 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 884204001783 active site 884204001784 metal binding site [ion binding]; metal-binding site 884204001785 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 884204001786 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 884204001787 NAD binding site [chemical binding]; other site 884204001788 substrate binding site [chemical binding]; other site 884204001789 homodimer interface [polypeptide binding]; other site 884204001790 active site 884204001791 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 884204001792 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 884204001793 substrate binding site; other site 884204001794 tetramer interface; other site 884204001795 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 884204001796 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 884204001797 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 884204001798 NADP binding site [chemical binding]; other site 884204001799 active site 884204001800 putative substrate binding site [chemical binding]; other site 884204001801 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 884204001802 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 884204001803 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 884204001804 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 884204001805 Walker A/P-loop; other site 884204001806 ATP binding site [chemical binding]; other site 884204001807 Q-loop/lid; other site 884204001808 ABC transporter signature motif; other site 884204001809 Walker B; other site 884204001810 D-loop; other site 884204001811 H-loop/switch region; other site 884204001812 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 884204001813 putative carbohydrate binding site [chemical binding]; other site 884204001814 Acyltransferase family; Region: Acyl_transf_3; pfam01757 884204001815 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 884204001816 extended (e) SDRs; Region: SDR_e; cd08946 884204001817 NAD(P) binding site [chemical binding]; other site 884204001818 active site 884204001819 substrate binding site [chemical binding]; other site 884204001820 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 884204001821 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 884204001822 Probable Catalytic site; other site 884204001823 metal-binding site 884204001824 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204001825 Methyltransferase domain; Region: Methyltransf_12; pfam08242 884204001826 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 884204001827 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 884204001828 active site 884204001829 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 884204001830 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 884204001831 Probable Catalytic site; other site 884204001832 metal-binding site 884204001833 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 884204001834 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 884204001835 active site 884204001836 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 884204001837 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 884204001838 Probable Catalytic site; other site 884204001839 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 884204001840 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 884204001841 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 884204001842 putative NAD(P) binding site [chemical binding]; other site 884204001843 active site 884204001844 putative substrate binding site [chemical binding]; other site 884204001845 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 884204001846 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 884204001847 Mg++ binding site [ion binding]; other site 884204001848 putative catalytic motif [active] 884204001849 putative substrate binding site [chemical binding]; other site 884204001850 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 884204001851 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 884204001852 NAD(P) binding site [chemical binding]; other site 884204001853 homodimer interface [polypeptide binding]; other site 884204001854 substrate binding site [chemical binding]; other site 884204001855 active site 884204001856 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 884204001857 Mg++ binding site [ion binding]; other site 884204001858 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 884204001859 putative catalytic motif [active] 884204001860 UDP-glucose 4-epimerase; Region: PLN02240 884204001861 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 884204001862 NAD binding site [chemical binding]; other site 884204001863 homodimer interface [polypeptide binding]; other site 884204001864 active site 884204001865 substrate binding site [chemical binding]; other site 884204001866 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 884204001867 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204001868 putative ADP-binding pocket [chemical binding]; other site 884204001869 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 884204001870 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 884204001871 active site 884204001872 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 884204001873 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 884204001874 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 884204001875 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 884204001876 active site 884204001877 substrate binding site [chemical binding]; other site 884204001878 metal binding site [ion binding]; metal-binding site 884204001879 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 884204001880 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 884204001881 putative active site [active] 884204001882 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 884204001883 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 884204001884 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 884204001885 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 884204001886 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 884204001887 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 884204001888 UreF; Region: UreF; pfam01730 884204001889 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 884204001890 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 884204001891 dimer interface [polypeptide binding]; other site 884204001892 catalytic residues [active] 884204001893 urease subunit alpha; Reviewed; Region: ureC; PRK13207 884204001894 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 884204001895 subunit interactions [polypeptide binding]; other site 884204001896 active site 884204001897 flap region; other site 884204001898 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 884204001899 gamma-beta subunit interface [polypeptide binding]; other site 884204001900 alpha-beta subunit interface [polypeptide binding]; other site 884204001901 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 884204001902 alpha-gamma subunit interface [polypeptide binding]; other site 884204001903 beta-gamma subunit interface [polypeptide binding]; other site 884204001904 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 884204001905 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 884204001906 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 884204001907 Walker A/P-loop; other site 884204001908 ATP binding site [chemical binding]; other site 884204001909 Q-loop/lid; other site 884204001910 ABC transporter signature motif; other site 884204001911 Walker B; other site 884204001912 D-loop; other site 884204001913 H-loop/switch region; other site 884204001914 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 884204001915 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 884204001916 Walker A/P-loop; other site 884204001917 ATP binding site [chemical binding]; other site 884204001918 Q-loop/lid; other site 884204001919 ABC transporter signature motif; other site 884204001920 Walker B; other site 884204001921 D-loop; other site 884204001922 H-loop/switch region; other site 884204001923 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 884204001924 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 884204001925 TM-ABC transporter signature motif; other site 884204001926 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 884204001927 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204001928 TM-ABC transporter signature motif; other site 884204001929 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 884204001930 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 884204001931 putative ligand binding site [chemical binding]; other site 884204001932 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 884204001933 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 884204001934 inhibitor-cofactor binding pocket; inhibition site 884204001935 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204001936 catalytic residue [active] 884204001937 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 884204001938 active site residue [active] 884204001939 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 884204001940 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 884204001941 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 884204001942 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 884204001943 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 884204001944 FeS/SAM binding site; other site 884204001945 HemN C-terminal domain; Region: HemN_C; pfam06969 884204001946 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 884204001947 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 884204001948 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 884204001949 S-adenosylmethionine binding site [chemical binding]; other site 884204001950 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 884204001951 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204001952 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 884204001953 S-adenosylmethionine binding site [chemical binding]; other site 884204001954 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 884204001955 active site 884204001956 catalytic triad [active] 884204001957 calcium binding site [ion binding]; other site 884204001958 chromosome condensation membrane protein; Provisional; Region: PRK14196 884204001959 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 884204001960 YGGT family; Region: YGGT; pfam02325 884204001961 YGGT family; Region: YGGT; pfam02325 884204001962 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 884204001963 Rossmann-like domain; Region: Rossmann-like; pfam10727 884204001964 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 884204001965 serine racemase; Region: PLN02970 884204001966 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 884204001967 tetramer interface [polypeptide binding]; other site 884204001968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204001969 catalytic residue [active] 884204001970 LysE type translocator; Region: LysE; cl00565 884204001971 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 884204001972 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 884204001973 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 884204001974 N-acetyl-D-glucosamine binding site [chemical binding]; other site 884204001975 catalytic residue [active] 884204001976 aminotransferase; Validated; Region: PRK07337 884204001977 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 884204001978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204001979 homodimer interface [polypeptide binding]; other site 884204001980 catalytic residue [active] 884204001981 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 884204001982 putative RNA binding site [nucleotide binding]; other site 884204001983 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 884204001984 homopentamer interface [polypeptide binding]; other site 884204001985 active site 884204001986 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 884204001987 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 884204001988 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 884204001989 dimerization interface [polypeptide binding]; other site 884204001990 active site 884204001991 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 884204001992 Lumazine binding domain; Region: Lum_binding; pfam00677 884204001993 Lumazine binding domain; Region: Lum_binding; pfam00677 884204001994 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 884204001995 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 884204001996 catalytic motif [active] 884204001997 Zn binding site [ion binding]; other site 884204001998 RibD C-terminal domain; Region: RibD_C; cl17279 884204001999 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 884204002000 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 884204002001 inhibitor-cofactor binding pocket; inhibition site 884204002002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204002003 catalytic residue [active] 884204002004 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 884204002005 putative substrate translocation pore; other site 884204002006 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 884204002007 D-cysteine desulfhydrase; Validated; Region: PRK03910 884204002008 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 884204002009 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204002010 catalytic residue [active] 884204002011 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 884204002012 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 884204002013 Walker A/P-loop; other site 884204002014 ATP binding site [chemical binding]; other site 884204002015 Q-loop/lid; other site 884204002016 ABC transporter signature motif; other site 884204002017 Walker B; other site 884204002018 D-loop; other site 884204002019 H-loop/switch region; other site 884204002020 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 884204002021 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 884204002022 dimer interface [polypeptide binding]; other site 884204002023 conserved gate region; other site 884204002024 putative PBP binding loops; other site 884204002025 ABC-ATPase subunit interface; other site 884204002026 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 884204002027 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 884204002028 substrate binding pocket [chemical binding]; other site 884204002029 membrane-bound complex binding site; other site 884204002030 hinge residues; other site 884204002031 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 884204002032 glucokinase; Provisional; Region: glk; PRK00292 884204002033 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 884204002034 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 884204002035 putative active site [active] 884204002036 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 884204002037 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 884204002038 putative active site [active] 884204002039 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 884204002040 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 884204002041 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 884204002042 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 884204002043 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 884204002044 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 884204002045 dimer interface [polypeptide binding]; other site 884204002046 conserved gate region; other site 884204002047 putative PBP binding loops; other site 884204002048 ABC-ATPase subunit interface; other site 884204002049 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 884204002050 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 884204002051 dimer interface [polypeptide binding]; other site 884204002052 conserved gate region; other site 884204002053 putative PBP binding loops; other site 884204002054 ABC-ATPase subunit interface; other site 884204002055 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 884204002056 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 884204002057 Walker A/P-loop; other site 884204002058 ATP binding site [chemical binding]; other site 884204002059 Q-loop/lid; other site 884204002060 ABC transporter signature motif; other site 884204002061 Walker B; other site 884204002062 D-loop; other site 884204002063 H-loop/switch region; other site 884204002064 Predicted membrane protein [Function unknown]; Region: COG2860 884204002065 UPF0126 domain; Region: UPF0126; pfam03458 884204002066 UPF0126 domain; Region: UPF0126; pfam03458 884204002067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 884204002068 Smr domain; Region: Smr; pfam01713 884204002069 thioredoxin reductase; Provisional; Region: PRK10262 884204002070 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204002071 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 884204002072 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 884204002073 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 884204002074 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 884204002075 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 884204002076 recombination factor protein RarA; Reviewed; Region: PRK13342 884204002077 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 884204002078 Walker A motif; other site 884204002079 ATP binding site [chemical binding]; other site 884204002080 Walker B motif; other site 884204002081 arginine finger; other site 884204002082 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 884204002083 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 884204002084 seryl-tRNA synthetase; Provisional; Region: PRK05431 884204002085 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 884204002086 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 884204002087 dimer interface [polypeptide binding]; other site 884204002088 active site 884204002089 motif 1; other site 884204002090 motif 2; other site 884204002091 motif 3; other site 884204002092 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204002093 Coenzyme A binding pocket [chemical binding]; other site 884204002094 septum formation inhibitor; Reviewed; Region: PRK01973 884204002095 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 884204002096 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 884204002097 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 884204002098 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 884204002099 Switch I; other site 884204002100 Switch II; other site 884204002101 cell division topological specificity factor MinE; Provisional; Region: PRK13989 884204002102 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 884204002103 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 884204002104 putative ion selectivity filter; other site 884204002105 putative pore gating glutamate residue; other site 884204002106 putative H+/Cl- coupling transport residue; other site 884204002107 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 884204002108 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 884204002109 putative active site [active] 884204002110 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 884204002111 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204002112 putative substrate translocation pore; other site 884204002113 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 884204002114 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 884204002115 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 884204002116 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 884204002117 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 884204002118 FeS/SAM binding site; other site 884204002119 HemN C-terminal domain; Region: HemN_C; pfam06969 884204002120 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 884204002121 active site 884204002122 dimerization interface [polypeptide binding]; other site 884204002123 ribonuclease PH; Reviewed; Region: rph; PRK00173 884204002124 Ribonuclease PH; Region: RNase_PH_bact; cd11362 884204002125 hexamer interface [polypeptide binding]; other site 884204002126 active site 884204002127 hypothetical protein; Provisional; Region: PRK11820 884204002128 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 884204002129 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 884204002130 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 884204002131 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 884204002132 catalytic site [active] 884204002133 G-X2-G-X-G-K; other site 884204002134 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 884204002135 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 884204002136 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 884204002137 Zn2+ binding site [ion binding]; other site 884204002138 Mg2+ binding site [ion binding]; other site 884204002139 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 884204002140 synthetase active site [active] 884204002141 NTP binding site [chemical binding]; other site 884204002142 metal binding site [ion binding]; metal-binding site 884204002143 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 884204002144 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 884204002145 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 884204002146 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 884204002147 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 884204002148 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204002149 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 884204002150 trimer interface [polypeptide binding]; other site 884204002151 eyelet of channel; other site 884204002152 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 884204002153 DNA-binding site [nucleotide binding]; DNA binding site 884204002154 RNA-binding motif; other site 884204002155 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 884204002156 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 884204002157 active site 884204002158 catalytic site [active] 884204002159 substrate binding site [chemical binding]; other site 884204002160 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 884204002161 GIY-YIG motif/motif A; other site 884204002162 active site 884204002163 catalytic site [active] 884204002164 putative DNA binding site [nucleotide binding]; other site 884204002165 metal binding site [ion binding]; metal-binding site 884204002166 chorismate mutase; Provisional; Region: PRK09269 884204002167 Chorismate mutase type II; Region: CM_2; cl00693 884204002168 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 884204002169 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 884204002170 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 884204002171 N-terminal plug; other site 884204002172 ligand-binding site [chemical binding]; other site 884204002173 BNR repeat-like domain; Region: BNR_2; pfam13088 884204002174 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 884204002175 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 884204002176 catalytic residues [active] 884204002177 fructose-1,6-bisphosphatase family protein; Region: PLN02628 884204002178 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 884204002179 AMP binding site [chemical binding]; other site 884204002180 metal binding site [ion binding]; metal-binding site 884204002181 active site 884204002182 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 884204002183 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204002184 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 884204002185 putative dimerization interface [polypeptide binding]; other site 884204002186 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 884204002187 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 884204002188 THF binding site; other site 884204002189 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 884204002190 substrate binding site [chemical binding]; other site 884204002191 THF binding site; other site 884204002192 zinc-binding site [ion binding]; other site 884204002193 aminopeptidase N; Provisional; Region: pepN; PRK14015 884204002194 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 884204002195 active site 884204002196 Zn binding site [ion binding]; other site 884204002197 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 884204002198 Predicted membrane protein [Function unknown]; Region: COG2119 884204002199 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 884204002200 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 884204002201 guanine deaminase; Provisional; Region: PRK09228 884204002202 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 884204002203 active site 884204002204 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 884204002205 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 884204002206 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 884204002207 active site 884204002208 purine riboside binding site [chemical binding]; other site 884204002209 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 884204002210 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 884204002211 XdhC Rossmann domain; Region: XdhC_C; pfam13478 884204002212 disulfide bond formation protein B; Provisional; Region: PRK02110 884204002213 amidase; Provisional; Region: PRK07056 884204002214 Amidase; Region: Amidase; cl11426 884204002215 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 884204002216 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 884204002217 catalytic triad [active] 884204002218 citrate-proton symporter; Provisional; Region: PRK15075 884204002219 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 884204002220 putative substrate translocation pore; other site 884204002221 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 884204002222 binding surface 884204002223 TPR motif; other site 884204002224 TPR repeat; Region: TPR_11; pfam13414 884204002225 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 884204002226 binding surface 884204002227 TPR motif; other site 884204002228 TPR repeat; Region: TPR_11; pfam13414 884204002229 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 884204002230 TPR repeat; Region: TPR_11; pfam13414 884204002231 TPR motif; other site 884204002232 binding surface 884204002233 TPR repeat; Region: TPR_11; pfam13414 884204002234 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 884204002235 binding surface 884204002236 TPR motif; other site 884204002237 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 884204002238 hypothetical protein; Provisional; Region: PRK06184 884204002239 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 884204002240 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 884204002241 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 884204002242 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 884204002243 catalytic loop [active] 884204002244 iron binding site [ion binding]; other site 884204002245 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 884204002246 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 884204002247 [4Fe-4S] binding site [ion binding]; other site 884204002248 molybdopterin cofactor binding site; other site 884204002249 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 884204002250 molybdopterin cofactor binding site; other site 884204002251 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 884204002252 putative dimer interface [polypeptide binding]; other site 884204002253 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 884204002254 SLBB domain; Region: SLBB; pfam10531 884204002255 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 884204002256 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 884204002257 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 884204002258 putative dimer interface [polypeptide binding]; other site 884204002259 [2Fe-2S] cluster binding site [ion binding]; other site 884204002260 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 884204002261 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 884204002262 PBP superfamily domain; Region: PBP_like; pfam12727 884204002263 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 884204002264 S-adenosylmethionine binding site [chemical binding]; other site 884204002265 phosphoglycolate phosphatase; Provisional; Region: PRK13226 884204002266 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 884204002267 motif II; other site 884204002268 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 884204002269 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 884204002270 S-adenosylmethionine binding site [chemical binding]; other site 884204002271 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204002272 ligand binding site [chemical binding]; other site 884204002273 DNA gyrase subunit A; Validated; Region: PRK05560 884204002274 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 884204002275 CAP-like domain; other site 884204002276 active site 884204002277 primary dimer interface [polypeptide binding]; other site 884204002278 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 884204002279 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 884204002280 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 884204002281 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 884204002282 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 884204002283 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 884204002284 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 884204002285 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 884204002286 homodimer interface [polypeptide binding]; other site 884204002287 substrate-cofactor binding pocket; other site 884204002288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204002289 catalytic residue [active] 884204002290 Chorismate mutase type II; Region: CM_2; smart00830 884204002291 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 884204002292 Prephenate dehydratase; Region: PDT; pfam00800 884204002293 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 884204002294 putative L-Phe binding site [chemical binding]; other site 884204002295 bifunctional prephenate dehydrogenase/3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK11861 884204002296 prephenate dehydrogenase; Validated; Region: PRK08507 884204002297 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 884204002298 hinge; other site 884204002299 active site 884204002300 cytidylate kinase; Provisional; Region: cmk; PRK00023 884204002301 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 884204002302 CMP-binding site; other site 884204002303 The sites determining sugar specificity; other site 884204002304 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 884204002305 IHF dimer interface [polypeptide binding]; other site 884204002306 IHF - DNA interface [nucleotide binding]; other site 884204002307 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 884204002308 tetratricopeptide repeat protein; Provisional; Region: PRK11788 884204002309 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 884204002310 binding surface 884204002311 TPR motif; other site 884204002312 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 884204002313 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 884204002314 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 884204002315 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 884204002316 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 884204002317 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 884204002318 putative ribose interaction site [chemical binding]; other site 884204002319 putative ADP binding site [chemical binding]; other site 884204002320 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 884204002321 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 884204002322 NADP binding site [chemical binding]; other site 884204002323 homopentamer interface [polypeptide binding]; other site 884204002324 substrate binding site [chemical binding]; other site 884204002325 active site 884204002326 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 884204002327 cysteine synthase B; Region: cysM; TIGR01138 884204002328 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 884204002329 dimer interface [polypeptide binding]; other site 884204002330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204002331 catalytic residue [active] 884204002332 Transglycosylase SLT domain; Region: SLT_2; pfam13406 884204002333 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 884204002334 N-acetyl-D-glucosamine binding site [chemical binding]; other site 884204002335 catalytic residue [active] 884204002336 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 884204002337 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 884204002338 putative active site [active] 884204002339 Zn binding site [ion binding]; other site 884204002340 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 884204002341 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204002342 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 884204002343 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 884204002344 Walker A/P-loop; other site 884204002345 ATP binding site [chemical binding]; other site 884204002346 Q-loop/lid; other site 884204002347 ABC transporter signature motif; other site 884204002348 Walker B; other site 884204002349 D-loop; other site 884204002350 H-loop/switch region; other site 884204002351 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 884204002352 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 884204002353 dimer interface [polypeptide binding]; other site 884204002354 conserved gate region; other site 884204002355 ABC-ATPase subunit interface; other site 884204002356 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 884204002357 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 884204002358 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 884204002359 Ligand binding site [chemical binding]; other site 884204002360 Electron transfer flavoprotein domain; Region: ETF; pfam01012 884204002361 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 884204002362 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 884204002363 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 884204002364 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 884204002365 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 884204002366 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204002367 active site 884204002368 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 884204002369 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 884204002370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204002371 hydroxyglutarate oxidase; Provisional; Region: PRK11728 884204002372 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 884204002373 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 884204002374 AsnC family; Region: AsnC_trans_reg; pfam01037 884204002375 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 884204002376 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 884204002377 FeS/SAM binding site; other site 884204002378 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 884204002379 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 884204002380 RimM N-terminal domain; Region: RimM; pfam01782 884204002381 PRC-barrel domain; Region: PRC; pfam05239 884204002382 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 884204002383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204002384 Coenzyme A binding pocket [chemical binding]; other site 884204002385 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 884204002386 putative active site [active] 884204002387 putative CoA binding site [chemical binding]; other site 884204002388 nudix motif; other site 884204002389 metal binding site [ion binding]; metal-binding site 884204002390 CobD/CbiB family protein; Provisional; Region: PRK07630 884204002391 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 884204002392 GTPase RsgA; Reviewed; Region: PRK00098 884204002393 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 884204002394 RNA binding site [nucleotide binding]; other site 884204002395 homodimer interface [polypeptide binding]; other site 884204002396 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 884204002397 GTPase/Zn-binding domain interface [polypeptide binding]; other site 884204002398 GTP/Mg2+ binding site [chemical binding]; other site 884204002399 G4 box; other site 884204002400 G5 box; other site 884204002401 G1 box; other site 884204002402 Switch I region; other site 884204002403 G2 box; other site 884204002404 G3 box; other site 884204002405 Switch II region; other site 884204002406 Peptidase family M48; Region: Peptidase_M48; pfam01435 884204002407 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 884204002408 catalytic site [active] 884204002409 putative active site [active] 884204002410 putative substrate binding site [chemical binding]; other site 884204002411 dimer interface [polypeptide binding]; other site 884204002412 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 884204002413 MPT binding site; other site 884204002414 trimer interface [polypeptide binding]; other site 884204002415 hypothetical protein; Provisional; Region: PRK05255 884204002416 peptidase PmbA; Provisional; Region: PRK11040 884204002417 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 884204002418 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 884204002419 folate binding site [chemical binding]; other site 884204002420 NADP+ binding site [chemical binding]; other site 884204002421 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204002422 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 884204002423 Walker A motif; other site 884204002424 ATP binding site [chemical binding]; other site 884204002425 Walker B motif; other site 884204002426 arginine finger; other site 884204002427 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204002428 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 884204002429 Walker A motif; other site 884204002430 ATP binding site [chemical binding]; other site 884204002431 Walker B motif; other site 884204002432 arginine finger; other site 884204002433 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204002434 thymidylate synthase; Provisional; Region: thyA; PRK13821 884204002435 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 884204002436 dimerization interface [polypeptide binding]; other site 884204002437 active site 884204002438 FecR protein; Region: FecR; pfam04773 884204002439 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 884204002440 dimerization interface [polypeptide binding]; other site 884204002441 putative DNA binding site [nucleotide binding]; other site 884204002442 putative Zn2+ binding site [ion binding]; other site 884204002443 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 884204002444 fumarate hydratase; Reviewed; Region: fumC; PRK00485 884204002445 Class II fumarases; Region: Fumarase_classII; cd01362 884204002446 active site 884204002447 tetramer interface [polypeptide binding]; other site 884204002448 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 884204002449 multidrug efflux protein; Reviewed; Region: PRK01766 884204002450 cation binding site [ion binding]; other site 884204002451 S4 domain; Region: S4_2; pfam13275 884204002452 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 884204002453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 884204002454 CreA protein; Region: CreA; pfam05981 884204002455 Ferredoxin [Energy production and conversion]; Region: COG1146 884204002456 4Fe-4S binding domain; Region: Fer4; cl02805 884204002457 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 884204002458 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 884204002459 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 884204002460 active site 884204002461 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 884204002462 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 884204002463 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 884204002464 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 884204002465 dimerization interface [polypeptide binding]; other site 884204002466 ligand binding site [chemical binding]; other site 884204002467 NADP binding site [chemical binding]; other site 884204002468 catalytic site [active] 884204002469 RmuC family; Region: RmuC; pfam02646 884204002470 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 884204002471 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 884204002472 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 884204002473 dimer interface [polypeptide binding]; other site 884204002474 putative functional site; other site 884204002475 putative MPT binding site; other site 884204002476 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 884204002477 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 884204002478 GTP binding site; other site 884204002479 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 884204002480 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 884204002481 FeS/SAM binding site; other site 884204002482 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 884204002483 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 884204002484 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 884204002485 homodimer interface [polypeptide binding]; other site 884204002486 oligonucleotide binding site [chemical binding]; other site 884204002487 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 884204002488 S4 domain; Region: S4; pfam01479 884204002489 RNA binding surface [nucleotide binding]; other site 884204002490 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 884204002491 active site 884204002492 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 884204002493 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 884204002494 motif II; other site 884204002495 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 884204002496 iron-sulfur cluster [ion binding]; other site 884204002497 [2Fe-2S] cluster binding site [ion binding]; other site 884204002498 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 884204002499 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 884204002500 tandem repeat interface [polypeptide binding]; other site 884204002501 oligomer interface [polypeptide binding]; other site 884204002502 active site residues [active] 884204002503 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 884204002504 putative SAM binding site [chemical binding]; other site 884204002505 homodimer interface [polypeptide binding]; other site 884204002506 Maf-like protein; Region: Maf; pfam02545 884204002507 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 884204002508 active site 884204002509 dimer interface [polypeptide binding]; other site 884204002510 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 884204002511 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 884204002512 putative phosphate acyltransferase; Provisional; Region: PRK05331 884204002513 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 884204002514 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 884204002515 dimer interface [polypeptide binding]; other site 884204002516 active site 884204002517 CoA binding pocket [chemical binding]; other site 884204002518 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 884204002519 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 884204002520 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 884204002521 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 884204002522 NAD(P) binding site [chemical binding]; other site 884204002523 homotetramer interface [polypeptide binding]; other site 884204002524 homodimer interface [polypeptide binding]; other site 884204002525 active site 884204002526 acyl carrier protein; Provisional; Region: acpP; PRK00982 884204002527 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 884204002528 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 884204002529 dimer interface [polypeptide binding]; other site 884204002530 active site 884204002531 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 884204002532 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204002533 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 884204002534 DNA binding residues [nucleotide binding] 884204002535 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 884204002536 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 884204002537 anti-sigma E factor; Provisional; Region: rseB; PRK09455 884204002538 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 884204002539 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 884204002540 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 884204002541 protein binding site [polypeptide binding]; other site 884204002542 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 884204002543 protein binding site [polypeptide binding]; other site 884204002544 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 884204002545 GTP-binding protein LepA; Provisional; Region: PRK05433 884204002546 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 884204002547 G1 box; other site 884204002548 putative GEF interaction site [polypeptide binding]; other site 884204002549 GTP/Mg2+ binding site [chemical binding]; other site 884204002550 Switch I region; other site 884204002551 G2 box; other site 884204002552 G3 box; other site 884204002553 Switch II region; other site 884204002554 G4 box; other site 884204002555 G5 box; other site 884204002556 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 884204002557 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 884204002558 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 884204002559 signal peptidase I; Provisional; Region: PRK10861 884204002560 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 884204002561 Catalytic site [active] 884204002562 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 884204002563 ribonuclease III; Provisional; Region: PRK14718 884204002564 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 884204002565 dimerization interface [polypeptide binding]; other site 884204002566 active site 884204002567 metal binding site [ion binding]; metal-binding site 884204002568 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 884204002569 GTPase Era; Reviewed; Region: era; PRK00089 884204002570 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 884204002571 G1 box; other site 884204002572 GTP/Mg2+ binding site [chemical binding]; other site 884204002573 Switch I region; other site 884204002574 G2 box; other site 884204002575 Switch II region; other site 884204002576 G3 box; other site 884204002577 G4 box; other site 884204002578 G5 box; other site 884204002579 KH domain; Region: KH_2; pfam07650 884204002580 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 884204002581 Recombination protein O N terminal; Region: RecO_N; pfam11967 884204002582 Recombination protein O C terminal; Region: RecO_C; pfam02565 884204002583 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 884204002584 active site 884204002585 hydrophilic channel; other site 884204002586 dimerization interface [polypeptide binding]; other site 884204002587 catalytic residues [active] 884204002588 active site lid [active] 884204002589 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 884204002590 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 884204002591 beta-hexosaminidase; Provisional; Region: PRK05337 884204002592 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204002593 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 884204002594 active site 884204002595 phosphorylation site [posttranslational modification] 884204002596 intermolecular recognition site; other site 884204002597 dimerization interface [polypeptide binding]; other site 884204002598 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 884204002599 Walker A motif; other site 884204002600 ATP binding site [chemical binding]; other site 884204002601 Walker B motif; other site 884204002602 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204002603 elongation factor P; Validated; Region: PRK00529 884204002604 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 884204002605 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 884204002606 RNA binding site [nucleotide binding]; other site 884204002607 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 884204002608 RNA binding site [nucleotide binding]; other site 884204002609 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 884204002610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 884204002611 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 884204002612 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 884204002613 GIY-YIG motif/motif A; other site 884204002614 active site 884204002615 catalytic site [active] 884204002616 putative DNA binding site [nucleotide binding]; other site 884204002617 metal binding site [ion binding]; metal-binding site 884204002618 UvrB/uvrC motif; Region: UVR; pfam02151 884204002619 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 884204002620 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 884204002621 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 884204002622 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 884204002623 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 884204002624 LysR family transcriptional regulator; Provisional; Region: PRK14997 884204002625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204002626 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 884204002627 putative effector binding pocket; other site 884204002628 putative dimerization interface [polypeptide binding]; other site 884204002629 Pirin-related protein [General function prediction only]; Region: COG1741 884204002630 Pirin; Region: Pirin; pfam02678 884204002631 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 884204002632 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204002633 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 884204002634 Protein of unknown function (DUF461); Region: DUF461; pfam04314 884204002635 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 884204002636 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 884204002637 Cu(I) binding site [ion binding]; other site 884204002638 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 884204002639 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 884204002640 active site 884204002641 motif I; other site 884204002642 motif II; other site 884204002643 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 884204002644 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 884204002645 active site 884204002646 homotetramer interface [polypeptide binding]; other site 884204002647 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 884204002648 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 884204002649 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 884204002650 Walker A/P-loop; other site 884204002651 ATP binding site [chemical binding]; other site 884204002652 Q-loop/lid; other site 884204002653 ABC transporter signature motif; other site 884204002654 Walker B; other site 884204002655 D-loop; other site 884204002656 H-loop/switch region; other site 884204002657 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 884204002658 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204002659 putative ADP-binding pocket [chemical binding]; other site 884204002660 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 884204002661 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 884204002662 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 884204002663 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 884204002664 dimerization interface [polypeptide binding]; other site 884204002665 ligand binding site [chemical binding]; other site 884204002666 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 884204002667 Phosphoesterase family; Region: Phosphoesterase; pfam04185 884204002668 Domain of unknown function (DUF756); Region: DUF756; pfam05506 884204002669 Domain of unknown function (DUF756); Region: DUF756; pfam05506 884204002670 pyridoxamine kinase; Validated; Region: PRK05756 884204002671 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 884204002672 dimer interface [polypeptide binding]; other site 884204002673 pyridoxal binding site [chemical binding]; other site 884204002674 ATP binding site [chemical binding]; other site 884204002675 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204002676 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204002677 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 884204002678 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 884204002679 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 884204002680 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 884204002681 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 884204002682 ligand binding site; other site 884204002683 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 884204002684 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 884204002685 B12 binding site [chemical binding]; other site 884204002686 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 884204002687 FeS/SAM binding site; other site 884204002688 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 884204002689 putative active site [active] 884204002690 YdjC motif; other site 884204002691 Mg binding site [ion binding]; other site 884204002692 putative homodimer interface [polypeptide binding]; other site 884204002693 putative membrane protein; Region: HpnL; TIGR03476 884204002694 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 884204002695 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 884204002696 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 884204002697 dimer interface [polypeptide binding]; other site 884204002698 conserved gate region; other site 884204002699 putative PBP binding loops; other site 884204002700 ABC-ATPase subunit interface; other site 884204002701 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 884204002702 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 884204002703 dimer interface [polypeptide binding]; other site 884204002704 conserved gate region; other site 884204002705 putative PBP binding loops; other site 884204002706 ABC-ATPase subunit interface; other site 884204002707 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 884204002708 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 884204002709 Walker A/P-loop; other site 884204002710 ATP binding site [chemical binding]; other site 884204002711 Q-loop/lid; other site 884204002712 ABC transporter signature motif; other site 884204002713 Walker B; other site 884204002714 D-loop; other site 884204002715 H-loop/switch region; other site 884204002716 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 884204002717 conserved cys residue [active] 884204002718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204002719 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204002720 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204002721 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 884204002722 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 884204002723 inhibitor-cofactor binding pocket; inhibition site 884204002724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204002725 catalytic residue [active] 884204002726 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 884204002727 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 884204002728 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 884204002729 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 884204002730 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 884204002731 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 884204002732 NAD(P) binding site [chemical binding]; other site 884204002733 catalytic residues [active] 884204002734 succinylarginine dihydrolase; Provisional; Region: PRK13281 884204002735 succinylglutamate desuccinylase; Provisional; Region: PRK05324 884204002736 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 884204002737 active site 884204002738 Zn binding site [ion binding]; other site 884204002739 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 884204002740 dimer interface [polypeptide binding]; other site 884204002741 N-terminal domain interface [polypeptide binding]; other site 884204002742 substrate binding pocket (H-site) [chemical binding]; other site 884204002743 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 884204002744 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 884204002745 substrate binding pocket [chemical binding]; other site 884204002746 membrane-bound complex binding site; other site 884204002747 hinge residues; other site 884204002748 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 884204002749 Fatty acid desaturase; Region: FA_desaturase; pfam00487 884204002750 putative di-iron ligands [ion binding]; other site 884204002751 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 884204002752 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 884204002753 Subunit I/III interface [polypeptide binding]; other site 884204002754 Subunit III/IV interface [polypeptide binding]; other site 884204002755 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 884204002756 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 884204002757 D-pathway; other site 884204002758 Putative ubiquinol binding site [chemical binding]; other site 884204002759 Low-spin heme (heme b) binding site [chemical binding]; other site 884204002760 Putative water exit pathway; other site 884204002761 Binuclear center (heme o3/CuB) [ion binding]; other site 884204002762 K-pathway; other site 884204002763 Putative proton exit pathway; other site 884204002764 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 884204002765 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 884204002766 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 884204002767 Hemerythrin; Region: Hemerythrin; cd12107 884204002768 Fe binding site [ion binding]; other site 884204002769 Transcriptional regulator; Region: Rrf2; cl17282 884204002770 Rrf2 family protein; Region: rrf2_super; TIGR00738 884204002771 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 884204002772 Domain of unknown function DUF59; Region: DUF59; cl00941 884204002773 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 884204002774 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 884204002775 trimerization site [polypeptide binding]; other site 884204002776 active site 884204002777 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 884204002778 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 884204002779 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204002780 catalytic residue [active] 884204002781 FeS assembly protein SufD; Region: sufD; TIGR01981 884204002782 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 884204002783 FeS assembly ATPase SufC; Region: sufC; TIGR01978 884204002784 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 884204002785 Walker A/P-loop; other site 884204002786 ATP binding site [chemical binding]; other site 884204002787 Q-loop/lid; other site 884204002788 ABC transporter signature motif; other site 884204002789 Walker B; other site 884204002790 D-loop; other site 884204002791 H-loop/switch region; other site 884204002792 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 884204002793 putative ABC transporter; Region: ycf24; CHL00085 884204002794 NnrS protein; Region: NnrS; pfam05940 884204002795 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 884204002796 dimerization interface [polypeptide binding]; other site 884204002797 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204002798 dimer interface [polypeptide binding]; other site 884204002799 putative CheW interface [polypeptide binding]; other site 884204002800 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 884204002801 HemN C-terminal domain; Region: HemN_C; pfam06969 884204002802 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 884204002803 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 884204002804 ligand binding site [chemical binding]; other site 884204002805 flexible hinge region; other site 884204002806 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 884204002807 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 884204002808 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 884204002809 FMN binding site [chemical binding]; other site 884204002810 substrate binding site [chemical binding]; other site 884204002811 putative catalytic residue [active] 884204002812 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 884204002813 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 884204002814 Peptidase family U32; Region: Peptidase_U32; pfam01136 884204002815 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 884204002816 putative protease; Provisional; Region: PRK15447 884204002817 SCP-2 sterol transfer family; Region: SCP2; cl01225 884204002818 DGC domain; Region: DGC; pfam08859 884204002819 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 884204002820 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 884204002821 FeS/SAM binding site; other site 884204002822 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 884204002823 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 884204002824 Class III ribonucleotide reductase; Region: RNR_III; cd01675 884204002825 effector binding site; other site 884204002826 active site 884204002827 Zn binding site [ion binding]; other site 884204002828 NnrS protein; Region: NnrS; pfam05940 884204002829 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 884204002830 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 884204002831 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 884204002832 Fatty acid desaturase; Region: FA_desaturase; pfam00487 884204002833 Di-iron ligands [ion binding]; other site 884204002834 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 884204002835 DNA photolyase; Region: DNA_photolyase; pfam00875 884204002836 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 884204002837 ligand-binding site [chemical binding]; other site 884204002838 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 884204002839 Autoinducer binding domain; Region: Autoind_bind; pfam03472 884204002840 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 884204002841 DNA binding residues [nucleotide binding] 884204002842 dimerization interface [polypeptide binding]; other site 884204002843 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 884204002844 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 884204002845 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 884204002846 active sites [active] 884204002847 tetramer interface [polypeptide binding]; other site 884204002848 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 884204002849 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204002850 DNA-binding site [nucleotide binding]; DNA binding site 884204002851 UTRA domain; Region: UTRA; pfam07702 884204002852 urocanate hydratase; Provisional; Region: PRK05414 884204002853 HutD; Region: HutD; pfam05962 884204002854 imidazolonepropionase; Validated; Region: PRK09356 884204002855 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 884204002856 active site 884204002857 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 884204002858 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 884204002859 active site 884204002860 N-formylglutamate amidohydrolase; Region: FGase; cl01522 884204002861 Peptidase C26; Region: Peptidase_C26; pfam07722 884204002862 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 884204002863 catalytic triad [active] 884204002864 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 884204002865 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 884204002866 putative aminotransferase; Validated; Region: PRK07480 884204002867 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 884204002868 inhibitor-cofactor binding pocket; inhibition site 884204002869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204002870 catalytic residue [active] 884204002871 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 884204002872 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 884204002873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204002874 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 884204002875 dimerization interface [polypeptide binding]; other site 884204002876 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204002877 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204002878 active site 884204002879 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 884204002880 CoA-transferase family III; Region: CoA_transf_3; pfam02515 884204002881 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 884204002882 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204002883 putative substrate translocation pore; other site 884204002884 oxidative damage protection protein; Provisional; Region: PRK05408 884204002885 N-acetylglutamate synthase; Validated; Region: PRK05279 884204002886 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 884204002887 putative feedback inhibition sensing region; other site 884204002888 putative nucleotide binding site [chemical binding]; other site 884204002889 putative substrate binding site [chemical binding]; other site 884204002890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204002891 Coenzyme A binding pocket [chemical binding]; other site 884204002892 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 884204002893 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 884204002894 ATP binding site [chemical binding]; other site 884204002895 putative Mg++ binding site [ion binding]; other site 884204002896 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 884204002897 nucleotide binding region [chemical binding]; other site 884204002898 ATP-binding site [chemical binding]; other site 884204002899 Helicase associated domain (HA2); Region: HA2; pfam04408 884204002900 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 884204002901 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 884204002902 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 884204002903 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 884204002904 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 884204002905 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 884204002906 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 884204002907 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 884204002908 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 884204002909 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 884204002910 putative MPT binding site; other site 884204002911 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 884204002912 active site residue [active] 884204002913 glutamine synthetase; Provisional; Region: glnA; PRK09469 884204002914 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 884204002915 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 884204002916 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 884204002917 PAS domain; Region: PAS; smart00091 884204002918 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 884204002919 dimer interface [polypeptide binding]; other site 884204002920 phosphorylation site [posttranslational modification] 884204002921 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 884204002922 ATP binding site [chemical binding]; other site 884204002923 Mg2+ binding site [ion binding]; other site 884204002924 G-X-G motif; other site 884204002925 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 884204002926 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 884204002927 active site 884204002928 phosphorylation site [posttranslational modification] 884204002929 intermolecular recognition site; other site 884204002930 dimerization interface [polypeptide binding]; other site 884204002931 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 884204002932 Walker A motif; other site 884204002933 ATP binding site [chemical binding]; other site 884204002934 Walker B motif; other site 884204002935 arginine finger; other site 884204002936 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204002937 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 884204002938 putative catalytic site [active] 884204002939 putative phosphate binding site [ion binding]; other site 884204002940 active site 884204002941 metal binding site A [ion binding]; metal-binding site 884204002942 DNA binding site [nucleotide binding] 884204002943 putative AP binding site [nucleotide binding]; other site 884204002944 putative metal binding site B [ion binding]; other site 884204002945 transcriptional regulator NarL; Provisional; Region: PRK10651 884204002946 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 884204002947 active site 884204002948 phosphorylation site [posttranslational modification] 884204002949 intermolecular recognition site; other site 884204002950 dimerization interface [polypeptide binding]; other site 884204002951 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 884204002952 DNA binding residues [nucleotide binding] 884204002953 dimerization interface [polypeptide binding]; other site 884204002954 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 884204002955 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 884204002956 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 884204002957 dimerization interface [polypeptide binding]; other site 884204002958 GAF domain; Region: GAF; pfam01590 884204002959 Histidine kinase; Region: HisKA_3; pfam07730 884204002960 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 884204002961 ATP binding site [chemical binding]; other site 884204002962 Mg2+ binding site [ion binding]; other site 884204002963 G-X-G motif; other site 884204002964 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 884204002965 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 884204002966 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 884204002967 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 884204002968 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 884204002969 [4Fe-4S] binding site [ion binding]; other site 884204002970 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 884204002971 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 884204002972 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 884204002973 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 884204002974 molybdopterin cofactor binding site; other site 884204002975 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 884204002976 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 884204002977 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 884204002978 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 884204002979 putative substrate translocation pore; other site 884204002980 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 884204002981 active site 884204002982 DNA polymerase IV; Validated; Region: PRK02406 884204002983 DNA binding site [nucleotide binding] 884204002984 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 884204002985 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 884204002986 active site 884204002987 Zn binding site [ion binding]; other site 884204002988 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 884204002989 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 884204002990 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 884204002991 homodimer interface [polypeptide binding]; other site 884204002992 NADP binding site [chemical binding]; other site 884204002993 substrate binding site [chemical binding]; other site 884204002994 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 884204002995 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 884204002996 active site 884204002997 phosphorylation site [posttranslational modification] 884204002998 intermolecular recognition site; other site 884204002999 dimerization interface [polypeptide binding]; other site 884204003000 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 884204003001 DNA binding residues [nucleotide binding] 884204003002 dimerization interface [polypeptide binding]; other site 884204003003 PAS domain S-box; Region: sensory_box; TIGR00229 884204003004 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 884204003005 putative active site [active] 884204003006 heme pocket [chemical binding]; other site 884204003007 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 884204003008 dimer interface [polypeptide binding]; other site 884204003009 phosphorylation site [posttranslational modification] 884204003010 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 884204003011 ATP binding site [chemical binding]; other site 884204003012 Mg2+ binding site [ion binding]; other site 884204003013 G-X-G motif; other site 884204003014 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 884204003015 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 884204003016 dimer interface [polypeptide binding]; other site 884204003017 TPP-binding site [chemical binding]; other site 884204003018 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 884204003019 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 884204003020 E3 interaction surface; other site 884204003021 lipoyl attachment site [posttranslational modification]; other site 884204003022 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 884204003023 E3 interaction surface; other site 884204003024 lipoyl attachment site [posttranslational modification]; other site 884204003025 e3 binding domain; Region: E3_binding; pfam02817 884204003026 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 884204003027 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 884204003028 E3 interaction surface; other site 884204003029 lipoyl attachment site [posttranslational modification]; other site 884204003030 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 884204003031 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204003032 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204003033 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 884204003034 Phasin protein; Region: Phasin_2; pfam09361 884204003035 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 884204003036 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 884204003037 Transposase domain (DUF772); Region: DUF772; pfam05598 884204003038 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 884204003039 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 884204003040 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 884204003041 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204003042 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204003043 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 884204003044 Cysteine-rich domain; Region: CCG; pfam02754 884204003045 Cysteine-rich domain; Region: CCG; pfam02754 884204003046 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 884204003047 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 884204003048 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 884204003049 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 884204003050 Low molecular weight phosphatase family; Region: LMWPc; cd00115 884204003051 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 884204003052 active site 884204003053 Predicted transcriptional regulator [Transcription]; Region: COG1959 884204003054 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 884204003055 cysteine desulfurase; Provisional; Region: PRK14012 884204003056 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 884204003057 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204003058 catalytic residue [active] 884204003059 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 884204003060 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 884204003061 trimerization site [polypeptide binding]; other site 884204003062 active site 884204003063 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 884204003064 co-chaperone HscB; Provisional; Region: hscB; PRK03578 884204003065 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 884204003066 HSP70 interaction site [polypeptide binding]; other site 884204003067 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 884204003068 chaperone protein HscA; Provisional; Region: hscA; PRK05183 884204003069 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 884204003070 nucleotide binding site [chemical binding]; other site 884204003071 putative NEF/HSP70 interaction site [polypeptide binding]; other site 884204003072 SBD interface [polypeptide binding]; other site 884204003073 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 884204003074 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 884204003075 catalytic loop [active] 884204003076 iron binding site [ion binding]; other site 884204003077 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 884204003078 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 884204003079 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 884204003080 dimer interface [polypeptide binding]; other site 884204003081 putative anticodon binding site; other site 884204003082 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 884204003083 motif 1; other site 884204003084 active site 884204003085 motif 2; other site 884204003086 motif 3; other site 884204003087 This domain is found in peptide chain release factors; Region: PCRF; smart00937 884204003088 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 884204003089 RF-1 domain; Region: RF-1; pfam00472 884204003090 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 884204003091 DHH family; Region: DHH; pfam01368 884204003092 DHHA1 domain; Region: DHHA1; pfam02272 884204003093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 884204003094 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 884204003095 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 884204003096 FtsX-like permease family; Region: FtsX; pfam02687 884204003097 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 884204003098 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 884204003099 Walker A/P-loop; other site 884204003100 ATP binding site [chemical binding]; other site 884204003101 Q-loop/lid; other site 884204003102 ABC transporter signature motif; other site 884204003103 Walker B; other site 884204003104 D-loop; other site 884204003105 H-loop/switch region; other site 884204003106 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 884204003107 active site 884204003108 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 884204003109 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 884204003110 Competence protein; Region: Competence; pfam03772 884204003111 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 884204003112 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 884204003113 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 884204003114 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; cd00741 884204003115 nucleophilic elbow; other site 884204003116 catalytic triad; other site 884204003117 CTP synthetase; Validated; Region: pyrG; PRK05380 884204003118 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 884204003119 Catalytic site [active] 884204003120 active site 884204003121 UTP binding site [chemical binding]; other site 884204003122 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 884204003123 active site 884204003124 putative oxyanion hole; other site 884204003125 catalytic triad [active] 884204003126 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 884204003127 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 884204003128 enolase; Provisional; Region: eno; PRK00077 884204003129 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 884204003130 dimer interface [polypeptide binding]; other site 884204003131 metal binding site [ion binding]; metal-binding site 884204003132 substrate binding pocket [chemical binding]; other site 884204003133 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 884204003134 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 884204003135 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 884204003136 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 884204003137 dimerization interface [polypeptide binding]; other site 884204003138 domain crossover interface; other site 884204003139 redox-dependent activation switch; other site 884204003140 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 884204003141 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 884204003142 trimer interface [polypeptide binding]; other site 884204003143 putative metal binding site [ion binding]; other site 884204003144 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 884204003145 dinuclear metal binding motif [ion binding]; other site 884204003146 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204003147 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204003148 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 884204003149 catalytic site [active] 884204003150 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 884204003151 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 884204003152 active site 884204003153 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 884204003154 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 884204003155 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 884204003156 Peptidase family M50; Region: Peptidase_M50; pfam02163 884204003157 active site 884204003158 putative substrate binding region [chemical binding]; other site 884204003159 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 884204003160 active site 884204003161 HIGH motif; other site 884204003162 dimer interface [polypeptide binding]; other site 884204003163 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 884204003164 active site 884204003165 KMSKS motif; other site 884204003166 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 884204003167 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 884204003168 dihydrodipicolinate synthase; Region: dapA; TIGR00674 884204003169 dimer interface [polypeptide binding]; other site 884204003170 active site 884204003171 catalytic residue [active] 884204003172 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 884204003173 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 884204003174 Uncharacterized conserved protein [Function unknown]; Region: COG2850 884204003175 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 884204003176 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 884204003177 MutS domain I; Region: MutS_I; pfam01624 884204003178 MutS domain II; Region: MutS_II; pfam05188 884204003179 MutS domain III; Region: MutS_III; pfam05192 884204003180 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 884204003181 Walker A/P-loop; other site 884204003182 ATP binding site [chemical binding]; other site 884204003183 Q-loop/lid; other site 884204003184 ABC transporter signature motif; other site 884204003185 Walker B; other site 884204003186 D-loop; other site 884204003187 H-loop/switch region; other site 884204003188 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 884204003189 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 884204003190 active site 884204003191 DNA binding site [nucleotide binding] 884204003192 Int/Topo IB signature motif; other site 884204003193 ParB-like nuclease domain; Region: ParBc; cl02129 884204003194 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 884204003195 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204003196 sequence-specific DNA binding site [nucleotide binding]; other site 884204003197 salt bridge; other site 884204003198 Predicted P-loop ATPase and inactivated derivatives [General function prediction only]; Region: COG5545 884204003199 Virulence-associated protein E; Region: VirE; pfam05272 884204003200 MarR family; Region: MarR_2; cl17246 884204003201 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 884204003202 Uncharacterized archaeal Zn-finger protein [General function prediction only]; Region: COG1326 884204003203 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 884204003204 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 884204003205 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 884204003206 Clp protease; Region: CLP_protease; pfam00574 884204003207 oligomer interface [polypeptide binding]; other site 884204003208 active site residues [active] 884204003209 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 884204003210 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 884204003211 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 884204003212 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 884204003213 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 884204003214 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 884204003215 Baseplate J-like protein; Region: Baseplate_J; cl01294 884204003216 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 884204003217 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 884204003218 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 884204003219 Phage tail tube protein FII; Region: Phage_tube; pfam04985 884204003220 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 884204003221 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 884204003222 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 884204003223 Phage Tail Protein X; Region: Phage_tail_X; cl02088 884204003224 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 884204003225 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 884204003226 catalytic residue [active] 884204003227 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 884204003228 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 884204003229 PAAR motif; Region: PAAR_motif; pfam05488 884204003230 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 884204003231 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 884204003232 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 884204003233 active site 884204003234 dimerization interface [polypeptide binding]; other site 884204003235 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 884204003236 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 884204003237 serine O-acetyltransferase; Region: cysE; TIGR01172 884204003238 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 884204003239 trimer interface [polypeptide binding]; other site 884204003240 active site 884204003241 substrate binding site [chemical binding]; other site 884204003242 CoA binding site [chemical binding]; other site 884204003243 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 884204003244 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 884204003245 putative active site [active] 884204003246 putative metal binding site [ion binding]; other site 884204003247 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 884204003248 substrate binding site [chemical binding]; other site 884204003249 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 884204003250 substrate binding site [chemical binding]; other site 884204003251 TPR repeat; Region: TPR_11; pfam13414 884204003252 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 884204003253 binding surface 884204003254 TPR motif; other site 884204003255 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 884204003256 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 884204003257 active site 884204003258 HIGH motif; other site 884204003259 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 884204003260 KMSKS motif; other site 884204003261 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 884204003262 tRNA binding surface [nucleotide binding]; other site 884204003263 anticodon binding site; other site 884204003264 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 884204003265 endonuclease III; Region: ENDO3c; smart00478 884204003266 minor groove reading motif; other site 884204003267 helix-hairpin-helix signature motif; other site 884204003268 substrate binding pocket [chemical binding]; other site 884204003269 active site 884204003270 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 884204003271 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 884204003272 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 884204003273 Ligand Binding Site [chemical binding]; other site 884204003274 TilS substrate binding domain; Region: TilS; pfam09179 884204003275 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 884204003276 aspartate kinase; Reviewed; Region: PRK06635 884204003277 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 884204003278 putative Mg ion binding site [ion binding]; other site 884204003279 putative aspartate binding site [chemical binding]; other site 884204003280 putative catalytic residues [active] 884204003281 putative nucleotide binding site [chemical binding]; other site 884204003282 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 884204003283 putative allosteric regulatory site; other site 884204003284 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 884204003285 Fatty acyltransferase-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: fatty_acyltransferase_like; cd01846 884204003286 active site 884204003287 catalytic triad [active] 884204003288 oxyanion hole [active] 884204003289 Autotransporter beta-domain; Region: Autotransporter; smart00869 884204003290 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 884204003291 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 884204003292 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204003293 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204003294 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 884204003295 ligand-binding site [chemical binding]; other site 884204003296 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204003297 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204003298 acyl-activating enzyme (AAE) consensus motif; other site 884204003299 AMP binding site [chemical binding]; other site 884204003300 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204003301 Transmembrane secretion effector; Region: MFS_3; pfam05977 884204003302 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 884204003303 putative substrate translocation pore; other site 884204003304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 884204003305 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 884204003306 Condensation domain; Region: Condensation; pfam00668 884204003307 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204003308 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204003309 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204003310 acyl-activating enzyme (AAE) consensus motif; other site 884204003311 AMP binding site [chemical binding]; other site 884204003312 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204003313 Condensation domain; Region: Condensation; pfam00668 884204003314 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 884204003315 Condensation domain; Region: Condensation; pfam00668 884204003316 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204003317 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204003318 acyl-activating enzyme (AAE) consensus motif; other site 884204003319 AMP binding site [chemical binding]; other site 884204003320 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204003321 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 884204003322 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 884204003323 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 884204003324 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 884204003325 active site 884204003326 iron coordination sites [ion binding]; other site 884204003327 substrate binding pocket [chemical binding]; other site 884204003328 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 884204003329 S-adenosylmethionine binding site [chemical binding]; other site 884204003330 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 884204003331 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 884204003332 TPP-binding site [chemical binding]; other site 884204003333 dimer interface [polypeptide binding]; other site 884204003334 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 884204003335 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 884204003336 PYR/PP interface [polypeptide binding]; other site 884204003337 dimer interface [polypeptide binding]; other site 884204003338 TPP binding site [chemical binding]; other site 884204003339 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 884204003340 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 884204003341 phosphoserine aminotransferase; Provisional; Region: PRK12462 884204003342 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204003343 catalytic residue [active] 884204003344 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 884204003345 active site 884204003346 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 884204003347 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 884204003348 Active Sites [active] 884204003349 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 884204003350 G1 box; other site 884204003351 GTP/Mg2+ binding site [chemical binding]; other site 884204003352 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 884204003353 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 884204003354 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 884204003355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204003356 catalytic residue [active] 884204003357 dimer interface [polypeptide binding]; other site 884204003358 argininosuccinate lyase; Provisional; Region: PRK02186 884204003359 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 884204003360 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 884204003361 active sites [active] 884204003362 tetramer interface [polypeptide binding]; other site 884204003363 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 884204003364 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 884204003365 active site 884204003366 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204003367 Ferredoxin [Energy production and conversion]; Region: COG1146 884204003368 4Fe-4S binding domain; Region: Fer4; cl02805 884204003369 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 884204003370 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 884204003371 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 884204003372 FAD binding pocket [chemical binding]; other site 884204003373 FAD binding motif [chemical binding]; other site 884204003374 phosphate binding motif [ion binding]; other site 884204003375 beta-alpha-beta structure motif; other site 884204003376 NAD binding pocket [chemical binding]; other site 884204003377 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 884204003378 The MopB_1 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. These members belong to...; Region: MopB_1; cd02762 884204003379 putative [Fe4-S4] binding site [ion binding]; other site 884204003380 putative molybdopterin cofactor binding site [chemical binding]; other site 884204003381 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 884204003382 The MopB_CT_1 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_1; cd02782 884204003383 putative molybdopterin cofactor binding site; other site 884204003384 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 884204003385 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 884204003386 NAD binding site [chemical binding]; other site 884204003387 homotetramer interface [polypeptide binding]; other site 884204003388 homodimer interface [polypeptide binding]; other site 884204003389 substrate binding site [chemical binding]; other site 884204003390 active site 884204003391 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 884204003392 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 884204003393 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 884204003394 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 884204003395 dimer interface [polypeptide binding]; other site 884204003396 conserved gate region; other site 884204003397 putative PBP binding loops; other site 884204003398 ABC-ATPase subunit interface; other site 884204003399 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 884204003400 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 884204003401 dimer interface [polypeptide binding]; other site 884204003402 conserved gate region; other site 884204003403 putative PBP binding loops; other site 884204003404 ABC-ATPase subunit interface; other site 884204003405 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 884204003406 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204003407 Walker A/P-loop; other site 884204003408 ATP binding site [chemical binding]; other site 884204003409 Q-loop/lid; other site 884204003410 ABC transporter signature motif; other site 884204003411 Walker B; other site 884204003412 D-loop; other site 884204003413 H-loop/switch region; other site 884204003414 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 884204003415 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204003416 Walker A/P-loop; other site 884204003417 ATP binding site [chemical binding]; other site 884204003418 Q-loop/lid; other site 884204003419 ABC transporter signature motif; other site 884204003420 Walker B; other site 884204003421 D-loop; other site 884204003422 H-loop/switch region; other site 884204003423 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 884204003424 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 884204003425 NlpC/P60 family; Region: NLPC_P60; pfam00877 884204003426 hypothetical protein; Provisional; Region: PRK10279 884204003427 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 884204003428 nucleophile elbow; other site 884204003429 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 884204003430 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 884204003431 active site 884204003432 HIGH motif; other site 884204003433 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 884204003434 active site 884204003435 KMSKS motif; other site 884204003436 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204003437 Coenzyme A binding pocket [chemical binding]; other site 884204003438 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 884204003439 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 884204003440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204003441 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204003442 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 884204003443 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 884204003444 putative active site pocket [active] 884204003445 dimerization interface [polypeptide binding]; other site 884204003446 putative catalytic residue [active] 884204003447 malate synthase A; Region: malate_syn_A; TIGR01344 884204003448 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 884204003449 active site 884204003450 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 884204003451 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 884204003452 motif II; other site 884204003453 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204003454 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 884204003455 putative effector binding pocket; other site 884204003456 dimerization interface [polypeptide binding]; other site 884204003457 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 884204003458 Ligand Binding Site [chemical binding]; other site 884204003459 isocitrate lyase; Provisional; Region: PRK15063 884204003460 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 884204003461 tetramer interface [polypeptide binding]; other site 884204003462 active site 884204003463 Mg2+/Mn2+ binding site [ion binding]; other site 884204003464 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 884204003465 DEAD-like helicases superfamily; Region: DEXDc; smart00487 884204003466 ATP binding site [chemical binding]; other site 884204003467 Mg++ binding site [ion binding]; other site 884204003468 motif III; other site 884204003469 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 884204003470 nucleotide binding region [chemical binding]; other site 884204003471 ATP-binding site [chemical binding]; other site 884204003472 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 884204003473 acyl-CoA binding pocket [chemical binding]; other site 884204003474 CoA binding site [chemical binding]; other site 884204003475 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 884204003476 Glycoprotease family; Region: Peptidase_M22; pfam00814 884204003477 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 884204003478 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204003479 Coenzyme A binding pocket [chemical binding]; other site 884204003480 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 884204003481 Fe-S cluster binding site [ion binding]; other site 884204003482 active site 884204003483 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 884204003484 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 884204003485 dimer interface [polypeptide binding]; other site 884204003486 substrate binding site [chemical binding]; other site 884204003487 ATP binding site [chemical binding]; other site 884204003488 lysophospholipid transporter LplT; Provisional; Region: PRK11195 884204003489 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; cl17904 884204003490 alanine racemase; Reviewed; Region: dadX; PRK03646 884204003491 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 884204003492 active site 884204003493 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 884204003494 substrate binding site [chemical binding]; other site 884204003495 catalytic residues [active] 884204003496 dimer interface [polypeptide binding]; other site 884204003497 DNA repair protein RadA; Provisional; Region: PRK11823 884204003498 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 884204003499 Walker A motif/ATP binding site; other site 884204003500 ATP binding site [chemical binding]; other site 884204003501 Walker B motif; other site 884204003502 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 884204003503 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 884204003504 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 884204003505 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 884204003506 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 884204003507 ABC transporter; Region: ABC_tran_2; pfam12848 884204003508 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 884204003509 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 884204003510 catalytic residues [active] 884204003511 dimer interface [polypeptide binding]; other site 884204003512 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 884204003513 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 884204003514 putative active site [active] 884204003515 catalytic site [active] 884204003516 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 884204003517 putative active site [active] 884204003518 catalytic site [active] 884204003519 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 884204003520 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 884204003521 S-adenosylmethionine binding site [chemical binding]; other site 884204003522 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 884204003523 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 884204003524 metal binding site [ion binding]; metal-binding site 884204003525 dimer interface [polypeptide binding]; other site 884204003526 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 884204003527 ArsC family; Region: ArsC; pfam03960 884204003528 putative catalytic residues [active] 884204003529 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 884204003530 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 884204003531 trimer interface [polypeptide binding]; other site 884204003532 active site 884204003533 substrate binding site [chemical binding]; other site 884204003534 CoA binding site [chemical binding]; other site 884204003535 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 884204003536 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 884204003537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204003538 homodimer interface [polypeptide binding]; other site 884204003539 catalytic residue [active] 884204003540 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 884204003541 EamA-like transporter family; Region: EamA; pfam00892 884204003542 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 884204003543 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 884204003544 Walker A/P-loop; other site 884204003545 ATP binding site [chemical binding]; other site 884204003546 Q-loop/lid; other site 884204003547 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 884204003548 Q-loop/lid; other site 884204003549 ABC transporter signature motif; other site 884204003550 Walker B; other site 884204003551 D-loop; other site 884204003552 H-loop/switch region; other site 884204003553 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 884204003554 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 884204003555 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 884204003556 nucleotide binding pocket [chemical binding]; other site 884204003557 K-X-D-G motif; other site 884204003558 catalytic site [active] 884204003559 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 884204003560 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 884204003561 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 884204003562 Dimer interface [polypeptide binding]; other site 884204003563 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 884204003564 active site 884204003565 catalytic residues [active] 884204003566 metal binding site [ion binding]; metal-binding site 884204003567 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 884204003568 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 884204003569 RNA binding surface [nucleotide binding]; other site 884204003570 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 884204003571 active site 884204003572 PII uridylyl-transferase; Provisional; Region: PRK03059 884204003573 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 884204003574 metal binding triad; other site 884204003575 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 884204003576 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 884204003577 Zn2+ binding site [ion binding]; other site 884204003578 Mg2+ binding site [ion binding]; other site 884204003579 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 884204003580 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 884204003581 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 884204003582 active site 884204003583 elongation factor Ts; Provisional; Region: tsf; PRK09377 884204003584 UBA/TS-N domain; Region: UBA; pfam00627 884204003585 Elongation factor TS; Region: EF_TS; pfam00889 884204003586 Elongation factor TS; Region: EF_TS; pfam00889 884204003587 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 884204003588 putative nucleotide binding site [chemical binding]; other site 884204003589 uridine monophosphate binding site [chemical binding]; other site 884204003590 homohexameric interface [polypeptide binding]; other site 884204003591 ribosome recycling factor; Reviewed; Region: frr; PRK00083 884204003592 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 884204003593 hinge region; other site 884204003594 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; cl00230 884204003595 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 884204003596 catalytic residue [active] 884204003597 putative FPP diphosphate binding site; other site 884204003598 putative FPP binding hydrophobic cleft; other site 884204003599 dimer interface [polypeptide binding]; other site 884204003600 putative IPP diphosphate binding site; other site 884204003601 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 884204003602 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 884204003603 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 884204003604 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 884204003605 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 884204003606 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 884204003607 zinc metallopeptidase RseP; Provisional; Region: PRK10779 884204003608 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 884204003609 active site 884204003610 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 884204003611 protein binding site [polypeptide binding]; other site 884204003612 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 884204003613 putative substrate binding region [chemical binding]; other site 884204003614 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 884204003615 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 884204003616 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 884204003617 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 884204003618 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 884204003619 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 884204003620 Surface antigen; Region: Bac_surface_Ag; pfam01103 884204003621 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 884204003622 periplasmic chaperone; Provisional; Region: PRK10780 884204003623 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 884204003624 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 884204003625 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 884204003626 trimer interface [polypeptide binding]; other site 884204003627 active site 884204003628 UDP-GlcNAc binding site [chemical binding]; other site 884204003629 lipid binding site [chemical binding]; lipid-binding site 884204003630 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 884204003631 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 884204003632 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 884204003633 active site 884204003634 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 884204003635 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 884204003636 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 884204003637 RNA/DNA hybrid binding site [nucleotide binding]; other site 884204003638 active site 884204003639 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 884204003640 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 884204003641 PEP synthetase regulatory protein; Provisional; Region: PRK05339 884204003642 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 884204003643 peptidase domain interface [polypeptide binding]; other site 884204003644 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 884204003645 active site 884204003646 catalytic triad [active] 884204003647 calcium binding site [ion binding]; other site 884204003648 Phytochelatin synthase; Region: Phytochelatin; pfam05023 884204003649 phosphoenolpyruvate synthase; Validated; Region: PRK06464 884204003650 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 884204003651 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 884204003652 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 884204003653 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 884204003654 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 884204003655 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 884204003656 SmpB-tmRNA interface; other site 884204003657 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 884204003658 putative coenzyme Q binding site [chemical binding]; other site 884204003659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 884204003660 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 884204003661 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 884204003662 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 884204003663 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 884204003664 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 884204003665 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 884204003666 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 884204003667 active site 884204003668 GMP synthase; Reviewed; Region: guaA; PRK00074 884204003669 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 884204003670 AMP/PPi binding site [chemical binding]; other site 884204003671 candidate oxyanion hole; other site 884204003672 catalytic triad [active] 884204003673 potential glutamine specificity residues [chemical binding]; other site 884204003674 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 884204003675 ATP Binding subdomain [chemical binding]; other site 884204003676 Ligand Binding sites [chemical binding]; other site 884204003677 Dimerization subdomain; other site 884204003678 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 884204003679 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 884204003680 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 884204003681 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 884204003682 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 884204003683 nucleoside/Zn binding site; other site 884204003684 dimer interface [polypeptide binding]; other site 884204003685 catalytic motif [active] 884204003686 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 884204003687 dimer interface [polypeptide binding]; other site 884204003688 catalytic triad [active] 884204003689 Transcriptional regulators [Transcription]; Region: GntR; COG1802 884204003690 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204003691 DNA-binding site [nucleotide binding]; DNA binding site 884204003692 FCD domain; Region: FCD; pfam07729 884204003693 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 884204003694 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 884204003695 Na binding site [ion binding]; other site 884204003696 putative substrate binding site [chemical binding]; other site 884204003697 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 884204003698 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 884204003699 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 884204003700 active site 884204003701 catalytic site [active] 884204003702 tetramer interface [polypeptide binding]; other site 884204003703 OHCU decarboxylase; Region: UHCUDC; TIGR03164 884204003704 allantoicase; Provisional; Region: PRK13257 884204003705 Allantoicase repeat; Region: Allantoicase; pfam03561 884204003706 Allantoicase repeat; Region: Allantoicase; pfam03561 884204003707 ureidoglycolate hydrolase; Provisional; Region: PRK03606 884204003708 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 884204003709 Predicted membrane protein [Function unknown]; Region: COG3748 884204003710 Protein of unknown function (DUF989); Region: DUF989; pfam06181 884204003711 Cytochrome c; Region: Cytochrom_C; pfam00034 884204003712 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 884204003713 active site 884204003714 homotetramer interface [polypeptide binding]; other site 884204003715 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 884204003716 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 884204003717 active site 884204003718 putative substrate binding pocket [chemical binding]; other site 884204003719 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204003720 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204003721 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 884204003722 putative substrate binding pocket [chemical binding]; other site 884204003723 putative dimerization interface [polypeptide binding]; other site 884204003724 Dodecin; Region: Dodecin; pfam07311 884204003725 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 884204003726 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 884204003727 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 884204003728 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 884204003729 Tetratricopeptide repeat; Region: TPR_16; pfam13432 884204003730 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 884204003731 TPR motif; other site 884204003732 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 884204003733 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 884204003734 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 884204003735 Transglycosylase; Region: Transgly; pfam00912 884204003736 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 884204003737 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 884204003738 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 884204003739 tetramer interface [polypeptide binding]; other site 884204003740 hypothetical protein; Provisional; Region: PRK06815 884204003741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204003742 catalytic residue [active] 884204003743 acetylornithine deacetylase; Provisional; Region: PRK07522 884204003744 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 884204003745 metal binding site [ion binding]; metal-binding site 884204003746 putative dimer interface [polypeptide binding]; other site 884204003747 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 884204003748 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 884204003749 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 884204003750 ATP binding site [chemical binding]; other site 884204003751 putative Mg++ binding site [ion binding]; other site 884204003752 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 884204003753 nucleotide binding region [chemical binding]; other site 884204003754 ATP-binding site [chemical binding]; other site 884204003755 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 884204003756 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 884204003757 substrate binding site; other site 884204003758 dimer interface; other site 884204003759 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 884204003760 homotrimer interaction site [polypeptide binding]; other site 884204003761 zinc binding site [ion binding]; other site 884204003762 CDP-binding sites; other site 884204003763 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 884204003764 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 884204003765 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 884204003766 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 884204003767 dimer interface [polypeptide binding]; other site 884204003768 decamer (pentamer of dimers) interface [polypeptide binding]; other site 884204003769 catalytic triad [active] 884204003770 peroxidatic and resolving cysteines [active] 884204003771 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204003772 HAMP domain; Region: HAMP; pfam00672 884204003773 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 884204003774 dimer interface [polypeptide binding]; other site 884204003775 phosphorylation site [posttranslational modification] 884204003776 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 884204003777 ATP binding site [chemical binding]; other site 884204003778 Mg2+ binding site [ion binding]; other site 884204003779 G-X-G motif; other site 884204003780 osmolarity response regulator; Provisional; Region: ompR; PRK09468 884204003781 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 884204003782 active site 884204003783 phosphorylation site [posttranslational modification] 884204003784 intermolecular recognition site; other site 884204003785 dimerization interface [polypeptide binding]; other site 884204003786 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 884204003787 DNA binding site [nucleotide binding] 884204003788 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 884204003789 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 884204003790 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 884204003791 active site lid residues [active] 884204003792 substrate binding pocket [chemical binding]; other site 884204003793 catalytic residues [active] 884204003794 substrate-Mg2+ binding site; other site 884204003795 aspartate-rich region 1; other site 884204003796 aspartate-rich region 2; other site 884204003797 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 884204003798 PAAR motif; Region: PAAR_motif; pfam05488 884204003799 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 884204003800 HTH-like domain; Region: HTH_21; pfam13276 884204003801 Integrase core domain; Region: rve; pfam00665 884204003802 Integrase core domain; Region: rve_3; pfam13683 884204003803 Transposase; Region: HTH_Tnp_1; pfam01527 884204003804 Avidin family; Region: Avidin; pfam01382 884204003805 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 884204003806 PLD-like domain; Region: PLDc_2; pfam13091 884204003807 putative active site [active] 884204003808 catalytic site [active] 884204003809 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 884204003810 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 884204003811 active site 884204003812 Zn binding site [ion binding]; other site 884204003813 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204003814 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 884204003815 dimerization interface [polypeptide binding]; other site 884204003816 DNA binding residues [nucleotide binding] 884204003817 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 884204003818 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 884204003819 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 884204003820 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 884204003821 MarR family; Region: MarR_2; pfam12802 884204003822 MarR family; Region: MarR_2; cl17246 884204003823 Glycerate kinase family; Region: Gly_kinase; cl00841 884204003824 trigger factor; Provisional; Region: tig; PRK01490 884204003825 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 884204003826 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 884204003827 Clp protease; Region: CLP_protease; pfam00574 884204003828 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 884204003829 oligomer interface [polypeptide binding]; other site 884204003830 active site residues [active] 884204003831 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 884204003832 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 884204003833 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 884204003834 Walker A motif; other site 884204003835 ATP binding site [chemical binding]; other site 884204003836 Walker B motif; other site 884204003837 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 884204003838 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 884204003839 Found in ATP-dependent protease La (LON); Region: LON; smart00464 884204003840 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 884204003841 Walker A motif; other site 884204003842 ATP binding site [chemical binding]; other site 884204003843 Walker B motif; other site 884204003844 arginine finger; other site 884204003845 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 884204003846 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 884204003847 30S subunit binding site; other site 884204003848 SurA N-terminal domain; Region: SurA_N_3; cl07813 884204003849 periplasmic folding chaperone; Provisional; Region: PRK10788 884204003850 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 884204003851 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 884204003852 active site 884204003853 catalytic triad [active] 884204003854 oxyanion hole [active] 884204003855 switch loop; other site 884204003856 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 884204003857 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 884204003858 Walker A/P-loop; other site 884204003859 ATP binding site [chemical binding]; other site 884204003860 Q-loop/lid; other site 884204003861 ABC transporter signature motif; other site 884204003862 Walker B; other site 884204003863 D-loop; other site 884204003864 H-loop/switch region; other site 884204003865 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 884204003866 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 884204003867 active site 884204003868 dimer interface [polypeptide binding]; other site 884204003869 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 884204003870 dimer interface [polypeptide binding]; other site 884204003871 active site 884204003872 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 884204003873 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 884204003874 putative substrate binding site [chemical binding]; other site 884204003875 putative ATP binding site [chemical binding]; other site 884204003876 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 884204003877 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 884204003878 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 884204003879 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 884204003880 dimerization interface [polypeptide binding]; other site 884204003881 ATP binding site [chemical binding]; other site 884204003882 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 884204003883 dimerization interface [polypeptide binding]; other site 884204003884 ATP binding site [chemical binding]; other site 884204003885 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 884204003886 putative active site [active] 884204003887 catalytic triad [active] 884204003888 Predicted acetyltransferase [General function prediction only]; Region: COG3153 884204003889 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 884204003890 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 884204003891 BolA-like protein; Region: BolA; pfam01722 884204003892 intracellular septation protein A; Reviewed; Region: PRK00259 884204003893 SelR domain; Region: SelR; pfam01641 884204003894 methionine sulfoxide reductase B; Provisional; Region: PRK00222 884204003895 Uncharacterized conserved protein [Function unknown]; Region: COG0397 884204003896 hypothetical protein; Validated; Region: PRK00029 884204003897 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 884204003898 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 884204003899 dimer interface [polypeptide binding]; other site 884204003900 acyl-activating enzyme (AAE) consensus motif; other site 884204003901 putative active site [active] 884204003902 AMP binding site [chemical binding]; other site 884204003903 putative CoA binding site [chemical binding]; other site 884204003904 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 884204003905 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 884204003906 substrate binding site [chemical binding]; other site 884204003907 oxyanion hole (OAH) forming residues; other site 884204003908 trimer interface [polypeptide binding]; other site 884204003909 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 884204003910 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 884204003911 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 884204003912 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 884204003913 catalytic triad [active] 884204003914 metal binding site [ion binding]; metal-binding site 884204003915 conserved cis-peptide bond; other site 884204003916 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 884204003917 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 884204003918 dimer interface [polypeptide binding]; other site 884204003919 active site 884204003920 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 884204003921 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 884204003922 CoenzymeA binding site [chemical binding]; other site 884204003923 subunit interaction site [polypeptide binding]; other site 884204003924 PHB binding site; other site 884204003925 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 884204003926 Prostaglandin dehydrogenases; Region: PGDH; cd05288 884204003927 NAD(P) binding site [chemical binding]; other site 884204003928 substrate binding site [chemical binding]; other site 884204003929 dimer interface [polypeptide binding]; other site 884204003930 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 884204003931 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 884204003932 substrate binding pocket [chemical binding]; other site 884204003933 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 884204003934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204003935 Coenzyme A binding pocket [chemical binding]; other site 884204003936 NRDE protein; Region: NRDE; cl01315 884204003937 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 884204003938 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 884204003939 YceG-like family; Region: YceG; pfam02618 884204003940 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 884204003941 dimerization interface [polypeptide binding]; other site 884204003942 thymidylate kinase; Validated; Region: tmk; PRK00698 884204003943 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 884204003944 TMP-binding site; other site 884204003945 ATP-binding site [chemical binding]; other site 884204003946 DNA polymerase III subunit delta'; Validated; Region: PRK06964 884204003947 DNA polymerase III subunit delta'; Validated; Region: PRK08485 884204003948 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 884204003949 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204003950 Coenzyme A binding pocket [chemical binding]; other site 884204003951 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 884204003952 active site 884204003953 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 884204003954 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 884204003955 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 884204003956 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 884204003957 Mechanosensitive ion channel; Region: MS_channel; pfam00924 884204003958 Predicted ATPase [General function prediction only]; Region: COG4637 884204003959 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204003960 Walker A/P-loop; other site 884204003961 ATP binding site [chemical binding]; other site 884204003962 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 884204003963 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204003964 putative ADP-binding pocket [chemical binding]; other site 884204003965 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 884204003966 Domain of unknown function DUF221; Region: DUF221; pfam02714 884204003967 psiF repeat; Region: PsiF_repeat; pfam07769 884204003968 psiF repeat; Region: PsiF_repeat; pfam07769 884204003969 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 884204003970 active site 884204003971 homodimer interface [polypeptide binding]; other site 884204003972 homotetramer interface [polypeptide binding]; other site 884204003973 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 884204003974 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 884204003975 tartronate semialdehyde reductase; Provisional; Region: PRK15059 884204003976 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 884204003977 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 884204003978 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 884204003979 glyoxylate carboligase; Provisional; Region: PRK11269 884204003980 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204003981 PYR/PP interface [polypeptide binding]; other site 884204003982 dimer interface [polypeptide binding]; other site 884204003983 TPP binding site [chemical binding]; other site 884204003984 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204003985 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 884204003986 TPP-binding site [chemical binding]; other site 884204003987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204003988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204003989 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 884204003990 putative effector binding pocket; other site 884204003991 dimerization interface [polypeptide binding]; other site 884204003992 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 884204003993 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 884204003994 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 884204003995 active site 884204003996 metal binding site [ion binding]; metal-binding site 884204003997 RNA polymerase sigma factor; Provisional; Region: PRK12533 884204003998 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204003999 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 884204004000 DNA binding residues [nucleotide binding] 884204004001 Putative zinc-finger; Region: zf-HC2; pfam13490 884204004002 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 884204004003 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 884204004004 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 884204004005 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 884204004006 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 884204004007 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 884204004008 replicative DNA helicase; Provisional; Region: PRK07004 884204004009 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 884204004010 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 884204004011 Walker A motif; other site 884204004012 ATP binding site [chemical binding]; other site 884204004013 Walker B motif; other site 884204004014 DNA binding loops [nucleotide binding] 884204004015 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 884204004016 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 884204004017 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 884204004018 NlpC/P60 family; Region: NLPC_P60; pfam00877 884204004019 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 884204004020 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 884204004021 putative active site [active] 884204004022 PhoH-like protein; Region: PhoH; pfam02562 884204004023 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 884204004024 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 884204004025 catalytic triad [active] 884204004026 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 884204004027 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 884204004028 putative active site [active] 884204004029 putative catalytic site [active] 884204004030 putative Zn binding site [ion binding]; other site 884204004031 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 884204004032 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 884204004033 NAD binding site [chemical binding]; other site 884204004034 substrate binding site [chemical binding]; other site 884204004035 active site 884204004036 putative formyltransferase; Provisional; Region: PRK06988 884204004037 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 884204004038 active site 884204004039 substrate binding site [chemical binding]; other site 884204004040 cosubstrate binding site; other site 884204004041 catalytic site [active] 884204004042 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 884204004043 active site 884204004044 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 884204004045 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 884204004046 Ligand binding site; other site 884204004047 Putative Catalytic site; other site 884204004048 DXD motif; other site 884204004049 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 884204004050 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 884204004051 inhibitor-cofactor binding pocket; inhibition site 884204004052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204004053 catalytic residue [active] 884204004054 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 884204004055 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 884204004056 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 884204004057 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 884204004058 aminotransferase AlaT; Validated; Region: PRK09265 884204004059 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 884204004060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204004061 homodimer interface [polypeptide binding]; other site 884204004062 catalytic residue [active] 884204004063 homoserine dehydrogenase; Provisional; Region: PRK06349 884204004064 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 884204004065 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 884204004066 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 884204004067 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 884204004068 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 884204004069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204004070 catalytic residue [active] 884204004071 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 884204004072 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 884204004073 dimer interface [polypeptide binding]; other site 884204004074 putative functional site; other site 884204004075 putative MPT binding site; other site 884204004076 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 884204004077 MoaE interaction surface [polypeptide binding]; other site 884204004078 MoeB interaction surface [polypeptide binding]; other site 884204004079 thiocarboxylated glycine; other site 884204004080 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 884204004081 MoaE homodimer interface [polypeptide binding]; other site 884204004082 MoaD interaction [polypeptide binding]; other site 884204004083 active site residues [active] 884204004084 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 884204004085 apolar tunnel; other site 884204004086 heme binding site [chemical binding]; other site 884204004087 dimerization interface [polypeptide binding]; other site 884204004088 Transcriptional regulator; Region: Rrf2; cl17282 884204004089 Rrf2 family protein; Region: rrf2_super; TIGR00738 884204004090 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 884204004091 Clp amino terminal domain; Region: Clp_N; pfam02861 884204004092 Clp amino terminal domain; Region: Clp_N; pfam02861 884204004093 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 884204004094 Walker A motif; other site 884204004095 ATP binding site [chemical binding]; other site 884204004096 Walker B motif; other site 884204004097 arginine finger; other site 884204004098 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 884204004099 Walker A motif; other site 884204004100 ATP binding site [chemical binding]; other site 884204004101 Walker B motif; other site 884204004102 arginine finger; other site 884204004103 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 884204004104 Transposase domain (DUF772); Region: DUF772; pfam05598 884204004105 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 884204004106 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 884204004107 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 884204004108 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 884204004109 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 884204004110 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 884204004111 DNA binding residues [nucleotide binding] 884204004112 putative dimer interface [polypeptide binding]; other site 884204004113 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 884204004114 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 884204004115 putative efflux protein, MATE family; Region: matE; TIGR00797 884204004116 cation binding site [ion binding]; other site 884204004117 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 884204004118 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 884204004119 Transposase; Region: DDE_Tnp_ISL3; pfam01610 884204004120 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 884204004121 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 884204004122 putative substrate translocation pore; other site 884204004123 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 884204004124 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 884204004125 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 884204004126 DNA binding residues [nucleotide binding] 884204004127 transcription termination factor Rho; Provisional; Region: rho; PRK09376 884204004128 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 884204004129 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 884204004130 RNA binding site [nucleotide binding]; other site 884204004131 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 884204004132 multimer interface [polypeptide binding]; other site 884204004133 Walker A motif; other site 884204004134 ATP binding site [chemical binding]; other site 884204004135 Walker B motif; other site 884204004136 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 884204004137 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 884204004138 catalytic residues [active] 884204004139 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 884204004140 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 884204004141 Walker A motif; other site 884204004142 ATP binding site [chemical binding]; other site 884204004143 Walker B motif; other site 884204004144 arginine finger; other site 884204004145 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 884204004146 hypothetical protein; Validated; Region: PRK00153 884204004147 recombination protein RecR; Reviewed; Region: recR; PRK00076 884204004148 RecR protein; Region: RecR; pfam02132 884204004149 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 884204004150 putative active site [active] 884204004151 putative metal-binding site [ion binding]; other site 884204004152 tetramer interface [polypeptide binding]; other site 884204004153 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 884204004154 CoA-transferase family III; Region: CoA_transf_3; pfam02515 884204004155 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 884204004156 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 884204004157 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 884204004158 S-adenosylmethionine binding site [chemical binding]; other site 884204004159 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 884204004160 Peptidase family M23; Region: Peptidase_M23; pfam01551 884204004161 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 884204004162 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 884204004163 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204004164 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 884204004165 DNA binding residues [nucleotide binding] 884204004166 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 884204004167 active site 884204004168 catalytic site [active] 884204004169 substrate binding site [chemical binding]; other site 884204004170 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 884204004171 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 884204004172 putative catalytic site [active] 884204004173 putative metal binding site [ion binding]; other site 884204004174 putative phosphate binding site [ion binding]; other site 884204004175 putative catalytic site [active] 884204004176 putative phosphate binding site [ion binding]; other site 884204004177 putative metal binding site [ion binding]; other site 884204004178 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 884204004179 TRAM domain; Region: TRAM; cl01282 884204004180 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 884204004181 S-adenosylmethionine binding site [chemical binding]; other site 884204004182 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 884204004183 YccA-like proteins; Region: YccA_like; cd10433 884204004184 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 884204004185 active site 884204004186 multimer interface [polypeptide binding]; other site 884204004187 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 884204004188 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 884204004189 FeS/SAM binding site; other site 884204004190 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 884204004191 non-specific DNA binding site [nucleotide binding]; other site 884204004192 salt bridge; other site 884204004193 sequence-specific DNA binding site [nucleotide binding]; other site 884204004194 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 884204004195 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 884204004196 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 884204004197 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 884204004198 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 884204004199 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 884204004200 dimer interface [polypeptide binding]; other site 884204004201 motif 1; other site 884204004202 active site 884204004203 motif 2; other site 884204004204 motif 3; other site 884204004205 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 884204004206 anticodon binding site; other site 884204004207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 884204004208 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 884204004209 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 884204004210 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 884204004211 Trp docking motif [polypeptide binding]; other site 884204004212 active site 884204004213 GTP-binding protein Der; Reviewed; Region: PRK00093 884204004214 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 884204004215 GTP/Mg2+ binding site [chemical binding]; other site 884204004216 Switch I region; other site 884204004217 G2 box; other site 884204004218 Switch II region; other site 884204004219 G3 box; other site 884204004220 G4 box; other site 884204004221 G5 box; other site 884204004222 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 884204004223 G1 box; other site 884204004224 GTP/Mg2+ binding site [chemical binding]; other site 884204004225 Switch I region; other site 884204004226 G2 box; other site 884204004227 G3 box; other site 884204004228 Switch II region; other site 884204004229 G4 box; other site 884204004230 G5 box; other site 884204004231 bacterial Hfq-like; Region: Hfq; cd01716 884204004232 hexamer interface [polypeptide binding]; other site 884204004233 Sm1 motif; other site 884204004234 RNA binding site [nucleotide binding]; other site 884204004235 Sm2 motif; other site 884204004236 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 884204004237 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 884204004238 HflX GTPase family; Region: HflX; cd01878 884204004239 G1 box; other site 884204004240 GTP/Mg2+ binding site [chemical binding]; other site 884204004241 Switch I region; other site 884204004242 G2 box; other site 884204004243 G3 box; other site 884204004244 Switch II region; other site 884204004245 G4 box; other site 884204004246 G5 box; other site 884204004247 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 884204004248 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 884204004249 HflK protein; Region: hflK; TIGR01933 884204004250 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 884204004251 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 884204004252 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 884204004253 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 884204004254 dimer interface [polypeptide binding]; other site 884204004255 motif 1; other site 884204004256 active site 884204004257 motif 2; other site 884204004258 motif 3; other site 884204004259 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 884204004260 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 884204004261 GDP-binding site [chemical binding]; other site 884204004262 ACT binding site; other site 884204004263 IMP binding site; other site 884204004264 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 884204004265 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204004266 active site 884204004267 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 884204004268 potassium uptake protein; Region: kup; TIGR00794 884204004269 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 884204004270 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 884204004271 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 884204004272 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 884204004273 RNA binding site [nucleotide binding]; other site 884204004274 Protein of unknown function (DUF465); Region: DUF465; pfam04325 884204004275 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 884204004276 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 884204004277 DEAD_2; Region: DEAD_2; pfam06733 884204004278 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 884204004279 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 884204004280 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 884204004281 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 884204004282 RNA binding surface [nucleotide binding]; other site 884204004283 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 884204004284 active site 884204004285 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 884204004286 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 884204004287 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 884204004288 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 884204004289 putative acyltransferase; Provisional; Region: PRK05790 884204004290 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 884204004291 dimer interface [polypeptide binding]; other site 884204004292 active site 884204004293 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 884204004294 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 884204004295 NAD(P) binding site [chemical binding]; other site 884204004296 homotetramer interface [polypeptide binding]; other site 884204004297 homodimer interface [polypeptide binding]; other site 884204004298 active site 884204004299 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 884204004300 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 884204004301 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 884204004302 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 884204004303 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 884204004304 FeS/SAM binding site; other site 884204004305 TRAM domain; Region: TRAM; cl01282 884204004306 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 884204004307 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 884204004308 substrate binding site [chemical binding]; other site 884204004309 ATP binding site [chemical binding]; other site 884204004310 beta-ketothiolase; Provisional; Region: PRK09051 884204004311 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 884204004312 dimer interface [polypeptide binding]; other site 884204004313 active site 884204004314 cystathionine beta-lyase; Provisional; Region: PRK07050 884204004315 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 884204004316 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204004317 catalytic residue [active] 884204004318 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 884204004319 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 884204004320 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 884204004321 motif II; other site 884204004322 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 884204004323 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 884204004324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204004325 Walker A/P-loop; other site 884204004326 ATP binding site [chemical binding]; other site 884204004327 Q-loop/lid; other site 884204004328 ABC transporter signature motif; other site 884204004329 Walker B; other site 884204004330 D-loop; other site 884204004331 H-loop/switch region; other site 884204004332 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 884204004333 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 884204004334 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 884204004335 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 884204004336 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 884204004337 ABC transporter; Region: ABC_tran_2; pfam12848 884204004338 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 884204004339 Burkholderia Lethal Factor 1; Region: BPSL1549; cd12812 884204004340 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 884204004341 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 884204004342 NAD binding site [chemical binding]; other site 884204004343 catalytic residues [active] 884204004344 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 884204004345 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 884204004346 FMN binding site [chemical binding]; other site 884204004347 substrate binding site [chemical binding]; other site 884204004348 putative catalytic residue [active] 884204004349 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 884204004350 Predicted Fe-S protein [General function prediction only]; Region: COG3313 884204004351 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 884204004352 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 884204004353 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 884204004354 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 884204004355 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 884204004356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204004357 Walker A/P-loop; other site 884204004358 ATP binding site [chemical binding]; other site 884204004359 Q-loop/lid; other site 884204004360 ABC transporter signature motif; other site 884204004361 Walker B; other site 884204004362 D-loop; other site 884204004363 H-loop/switch region; other site 884204004364 TOBE domain; Region: TOBE_2; pfam08402 884204004365 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 884204004366 dimer interface [polypeptide binding]; other site 884204004367 conserved gate region; other site 884204004368 putative PBP binding loops; other site 884204004369 ABC-ATPase subunit interface; other site 884204004370 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 884204004371 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 884204004372 dimer interface [polypeptide binding]; other site 884204004373 conserved gate region; other site 884204004374 putative PBP binding loops; other site 884204004375 ABC-ATPase subunit interface; other site 884204004376 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 884204004377 Putative phosphatase (DUF442); Region: DUF442; cl17385 884204004378 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 884204004379 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 884204004380 PAS fold; Region: PAS_4; pfam08448 884204004381 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 884204004382 putative active site [active] 884204004383 heme pocket [chemical binding]; other site 884204004384 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204004385 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 884204004386 Walker A motif; other site 884204004387 ATP binding site [chemical binding]; other site 884204004388 Walker B motif; other site 884204004389 arginine finger; other site 884204004390 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; cl17393 884204004391 DNA-binding interface [nucleotide binding]; DNA binding site 884204004392 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 884204004393 Predicted transcriptional regulator [Transcription]; Region: COG3655 884204004394 sequence-specific DNA binding site [nucleotide binding]; other site 884204004395 salt bridge; other site 884204004396 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 884204004397 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 884204004398 DNA binding residues [nucleotide binding] 884204004399 putative dimer interface [polypeptide binding]; other site 884204004400 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 884204004401 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 884204004402 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204004403 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 884204004404 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 884204004405 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204004406 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204004407 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204004408 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204004409 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 884204004410 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 884204004411 Cl- selectivity filter; other site 884204004412 Cl- binding residues [ion binding]; other site 884204004413 pore gating glutamate residue; other site 884204004414 dimer interface [polypeptide binding]; other site 884204004415 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 884204004416 Predicted membrane protein [Function unknown]; Region: COG2855 884204004417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204004418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204004419 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 884204004420 dimerization interface [polypeptide binding]; other site 884204004421 SdpI/YhfL protein family; Region: SdpI; pfam13630 884204004422 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 884204004423 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 884204004424 substrate binding site [chemical binding]; other site 884204004425 ATP binding site [chemical binding]; other site 884204004426 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 884204004427 D-galactonate transporter; Region: 2A0114; TIGR00893 884204004428 putative substrate translocation pore; other site 884204004429 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 884204004430 dimerization interface [polypeptide binding]; other site 884204004431 ligand binding site [chemical binding]; other site 884204004432 NADP binding site [chemical binding]; other site 884204004433 catalytic site [active] 884204004434 Transcriptional regulators [Transcription]; Region: PurR; COG1609 884204004435 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 884204004436 DNA binding site [nucleotide binding] 884204004437 domain linker motif; other site 884204004438 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 884204004439 putative ligand binding site [chemical binding]; other site 884204004440 putative dimerization interface [polypeptide binding]; other site 884204004441 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 884204004442 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 884204004443 PGDYG protein; Region: PGDYG; pfam14083 884204004444 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 884204004445 LTXXQ motif family protein; Region: LTXXQ; pfam07813 884204004446 thioester reductase domain; Region: Thioester-redct; TIGR01746 884204004447 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 884204004448 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 884204004449 AsnC family; Region: AsnC_trans_reg; pfam01037 884204004450 Double zinc ribbon; Region: DZR; pfam12773 884204004451 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 884204004452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204004453 AAA domain; Region: AAA_33; pfam13671 884204004454 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 884204004455 active site 884204004456 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 884204004457 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 884204004458 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 884204004459 oligomer interface [polypeptide binding]; other site 884204004460 metal binding site [ion binding]; metal-binding site 884204004461 metal binding site [ion binding]; metal-binding site 884204004462 putative Cl binding site [ion binding]; other site 884204004463 basic sphincter; other site 884204004464 hydrophobic gate; other site 884204004465 periplasmic entrance; other site 884204004466 YciI-like protein; Reviewed; Region: PRK12866 884204004467 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 884204004468 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 884204004469 Mechanosensitive ion channel; Region: MS_channel; pfam00924 884204004470 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 884204004471 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 884204004472 4Fe-4S binding domain; Region: Fer4_5; pfam12801 884204004473 4Fe-4S binding domain; Region: Fer4_5; pfam12801 884204004474 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 884204004475 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 884204004476 NosL; Region: NosL; pfam05573 884204004477 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 884204004478 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 884204004479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204004480 Walker A/P-loop; other site 884204004481 ATP binding site [chemical binding]; other site 884204004482 Q-loop/lid; other site 884204004483 ABC transporter signature motif; other site 884204004484 Walker B; other site 884204004485 D-loop; other site 884204004486 H-loop/switch region; other site 884204004487 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 884204004488 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 884204004489 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 884204004490 nitrous-oxide reductase; Validated; Region: PRK02888 884204004491 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 884204004492 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 884204004493 ApbE family; Region: ApbE; pfam02424 884204004494 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 884204004495 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 884204004496 Walker A/P-loop; other site 884204004497 ATP binding site [chemical binding]; other site 884204004498 Q-loop/lid; other site 884204004499 ABC transporter signature motif; other site 884204004500 Walker B; other site 884204004501 D-loop; other site 884204004502 H-loop/switch region; other site 884204004503 ABC-2 type transporter; Region: ABC2_membrane; cl17235 884204004504 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 884204004505 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 884204004506 dimerization interface [polypeptide binding]; other site 884204004507 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204004508 dimer interface [polypeptide binding]; other site 884204004509 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 884204004510 putative CheW interface [polypeptide binding]; other site 884204004511 dihydroxyacetone kinase; Provisional; Region: PRK14479 884204004512 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 884204004513 DAK2 domain; Region: Dak2; pfam02734 884204004514 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 884204004515 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 884204004516 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 884204004517 iron-sulfur cluster [ion binding]; other site 884204004518 [2Fe-2S] cluster binding site [ion binding]; other site 884204004519 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 884204004520 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 884204004521 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 884204004522 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 884204004523 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 884204004524 MEKHLA domain; Region: MEKHLA; pfam08670 884204004525 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 884204004526 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 884204004527 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 884204004528 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 884204004529 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 884204004530 PapC N-terminal domain; Region: PapC_N; pfam13954 884204004531 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 884204004532 PapC C-terminal domain; Region: PapC_C; pfam13953 884204004533 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 884204004534 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 884204004535 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 884204004536 Haemagglutinin; Region: HIM; pfam05662 884204004537 YadA-like C-terminal region; Region: YadA; pfam03895 884204004538 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204004539 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 884204004540 active site 884204004541 phosphorylation site [posttranslational modification] 884204004542 intermolecular recognition site; other site 884204004543 dimerization interface [polypeptide binding]; other site 884204004544 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 884204004545 DNA binding residues [nucleotide binding] 884204004546 dimerization interface [polypeptide binding]; other site 884204004547 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 884204004548 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 884204004549 dimer interface [polypeptide binding]; other site 884204004550 phosphorylation site [posttranslational modification] 884204004551 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 884204004552 ATP binding site [chemical binding]; other site 884204004553 Mg2+ binding site [ion binding]; other site 884204004554 G-X-G motif; other site 884204004555 Response regulator receiver domain; Region: Response_reg; pfam00072 884204004556 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 884204004557 active site 884204004558 phosphorylation site [posttranslational modification] 884204004559 intermolecular recognition site; other site 884204004560 dimerization interface [polypeptide binding]; other site 884204004561 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 884204004562 transcriptional regulator FimZ; Provisional; Region: PRK09935 884204004563 H-NS histone family; Region: Histone_HNS; pfam00816 884204004564 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204004565 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 884204004566 nucleophilic elbow; other site 884204004567 catalytic triad; other site 884204004568 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 884204004569 Transcriptional regulators [Transcription]; Region: GntR; COG1802 884204004570 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204004571 DNA-binding site [nucleotide binding]; DNA binding site 884204004572 FCD domain; Region: FCD; pfam07729 884204004573 Amino acid synthesis; Region: AA_synth; pfam06684 884204004574 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 884204004575 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 884204004576 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 884204004577 nucleophilic elbow; other site 884204004578 catalytic triad; other site 884204004579 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 884204004580 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 884204004581 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 884204004582 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 884204004583 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 884204004584 NAD(P) binding site [chemical binding]; other site 884204004585 catalytic residues [active] 884204004586 NIPSNAP; Region: NIPSNAP; pfam07978 884204004587 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 884204004588 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 884204004589 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 884204004590 putative PBP binding loops; other site 884204004591 ABC-ATPase subunit interface; other site 884204004592 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 884204004593 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 884204004594 dimer interface [polypeptide binding]; other site 884204004595 conserved gate region; other site 884204004596 putative PBP binding loops; other site 884204004597 ABC-ATPase subunit interface; other site 884204004598 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 884204004599 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204004600 Walker A/P-loop; other site 884204004601 ATP binding site [chemical binding]; other site 884204004602 Q-loop/lid; other site 884204004603 ABC transporter signature motif; other site 884204004604 Walker B; other site 884204004605 D-loop; other site 884204004606 H-loop/switch region; other site 884204004607 TOBE domain; Region: TOBE_2; pfam08402 884204004608 Transcriptional regulators [Transcription]; Region: GntR; COG1802 884204004609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204004610 DNA-binding site [nucleotide binding]; DNA binding site 884204004611 FCD domain; Region: FCD; pfam07729 884204004612 succinic semialdehyde dehydrogenase; Region: PLN02278 884204004613 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 884204004614 tetramerization interface [polypeptide binding]; other site 884204004615 NAD(P) binding site [chemical binding]; other site 884204004616 catalytic residues [active] 884204004617 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204004618 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 884204004619 trimer interface [polypeptide binding]; other site 884204004620 eyelet of channel; other site 884204004621 H-NS histone family; Region: Histone_HNS; pfam00816 884204004622 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 884204004623 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204004624 ligand binding site [chemical binding]; other site 884204004625 Outer membrane efflux protein; Region: OEP; pfam02321 884204004626 Outer membrane efflux protein; Region: OEP; pfam02321 884204004627 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 884204004628 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 884204004629 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 884204004630 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 884204004631 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 884204004632 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 884204004633 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 884204004634 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 884204004635 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 884204004636 Family description; Region: VCBS; pfam13517 884204004637 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 884204004638 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 884204004639 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 884204004640 Walker A/P-loop; other site 884204004641 ATP binding site [chemical binding]; other site 884204004642 Q-loop/lid; other site 884204004643 ABC transporter signature motif; other site 884204004644 Walker B; other site 884204004645 D-loop; other site 884204004646 H-loop/switch region; other site 884204004647 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 884204004648 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204004649 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204004650 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204004651 Methyltransferase domain; Region: Methyltransf_11; pfam08241 884204004652 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 884204004653 binding surface 884204004654 TPR motif; other site 884204004655 Tetratricopeptide repeat; Region: TPR_12; pfam13424 884204004656 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 884204004657 TPR repeat; Region: TPR_11; pfam13414 884204004658 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 884204004659 binding surface 884204004660 TPR motif; other site 884204004661 Tetratricopeptide repeat; Region: TPR_16; pfam13432 884204004662 TPR repeat; Region: TPR_11; pfam13414 884204004663 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 884204004664 TPR motif; other site 884204004665 binding surface 884204004666 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 884204004667 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 884204004668 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 884204004669 ligand-binding site [chemical binding]; other site 884204004670 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204004671 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 884204004672 active site 884204004673 phosphorylation site [posttranslational modification] 884204004674 intermolecular recognition site; other site 884204004675 dimerization interface [polypeptide binding]; other site 884204004676 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 884204004677 DNA binding site [nucleotide binding] 884204004678 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 884204004679 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 884204004680 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 884204004681 HTH-like domain; Region: HTH_21; pfam13276 884204004682 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 884204004683 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204004684 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 884204004685 trimer interface [polypeptide binding]; other site 884204004686 eyelet of channel; other site 884204004687 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 884204004688 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 884204004689 active sites [active] 884204004690 tetramer interface [polypeptide binding]; other site 884204004691 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204004692 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 884204004693 putative substrate translocation pore; other site 884204004694 urocanate hydratase; Provisional; Region: PRK05414 884204004695 Protein of unknown function (DUF917); Region: DUF917; pfam06032 884204004696 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 884204004697 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204004698 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 884204004699 putative dimerization interface [polypeptide binding]; other site 884204004700 allantoinase; Region: allantoinase; TIGR03178 884204004701 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 884204004702 active site 884204004703 allantoate amidohydrolase; Reviewed; Region: PRK12890 884204004704 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 884204004705 active site 884204004706 metal binding site [ion binding]; metal-binding site 884204004707 dimer interface [polypeptide binding]; other site 884204004708 Integrase core domain; Region: rve_3; cl15866 884204004709 RNA polymerase sigma factor; Provisional; Region: PRK12536 884204004710 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204004711 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 884204004712 DNA binding residues [nucleotide binding] 884204004713 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 884204004714 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 884204004715 Predicted membrane protein [Function unknown]; Region: COG2259 884204004716 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 884204004717 hypothetical protein; Provisional; Region: PRK05409 884204004718 Predicted integral membrane protein [Function unknown]; Region: COG5572 884204004719 Integrase core domain; Region: rve; pfam00665 884204004720 Transcriptional regulators [Transcription]; Region: GntR; COG1802 884204004721 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204004722 DNA-binding site [nucleotide binding]; DNA binding site 884204004723 FCD domain; Region: FCD; pfam07729 884204004724 multiple promoter invertase; Provisional; Region: mpi; PRK13413 884204004725 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 884204004726 catalytic residues [active] 884204004727 catalytic nucleophile [active] 884204004728 Presynaptic Site I dimer interface [polypeptide binding]; other site 884204004729 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 884204004730 Synaptic Flat tetramer interface [polypeptide binding]; other site 884204004731 Synaptic Site I dimer interface [polypeptide binding]; other site 884204004732 DNA binding site [nucleotide binding] 884204004733 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 884204004734 DNA-binding interface [nucleotide binding]; DNA binding site 884204004735 multiple promoter invertase; Provisional; Region: mpi; PRK13413 884204004736 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 884204004737 catalytic residues [active] 884204004738 catalytic nucleophile [active] 884204004739 Presynaptic Site I dimer interface [polypeptide binding]; other site 884204004740 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 884204004741 Synaptic Flat tetramer interface [polypeptide binding]; other site 884204004742 Synaptic Site I dimer interface [polypeptide binding]; other site 884204004743 DNA binding site [nucleotide binding] 884204004744 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 884204004745 DNA-binding interface [nucleotide binding]; DNA binding site 884204004746 Transposase; Region: HTH_Tnp_1; cl17663 884204004747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 884204004748 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 884204004749 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 884204004750 trimer interface [polypeptide binding]; other site 884204004751 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 884204004752 Haemagglutinin; Region: HIM; pfam05662 884204004753 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 884204004754 YadA-like C-terminal region; Region: YadA; pfam03895 884204004755 H-NS histone family; Region: Histone_HNS; pfam00816 884204004756 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204004757 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 884204004758 Kelch motif; Region: Kelch_6; pfam13964 884204004759 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 884204004760 SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from...; Region: XynB_like; cd01833 884204004761 active site 884204004762 catalytic triad [active] 884204004763 oxyanion hole [active] 884204004764 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204004765 Phosphopantetheine attachment site; Region: PP-binding; cl09936 884204004766 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 884204004767 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 884204004768 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 884204004769 active site 884204004770 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 884204004771 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 884204004772 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 884204004773 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 884204004774 acyl-activating enzyme (AAE) consensus motif; other site 884204004775 active site 884204004776 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204004777 Condensation domain; Region: Condensation; pfam00668 884204004778 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204004779 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204004780 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204004781 acyl-activating enzyme (AAE) consensus motif; other site 884204004782 AMP binding site [chemical binding]; other site 884204004783 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204004784 Condensation domain; Region: Condensation; pfam00668 884204004785 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204004786 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204004787 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204004788 acyl-activating enzyme (AAE) consensus motif; other site 884204004789 AMP binding site [chemical binding]; other site 884204004790 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204004791 Condensation domain; Region: Condensation; pfam00668 884204004792 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204004793 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204004794 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204004795 acyl-activating enzyme (AAE) consensus motif; other site 884204004796 AMP binding site [chemical binding]; other site 884204004797 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204004798 Condensation domain; Region: Condensation; pfam00668 884204004799 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204004800 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204004801 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204004802 acyl-activating enzyme (AAE) consensus motif; other site 884204004803 AMP binding site [chemical binding]; other site 884204004804 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204004805 Condensation domain; Region: Condensation; pfam00668 884204004806 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204004807 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204004808 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204004809 acyl-activating enzyme (AAE) consensus motif; other site 884204004810 AMP binding site [chemical binding]; other site 884204004811 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204004812 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204004813 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 884204004814 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204004815 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 884204004816 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 884204004817 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204004818 catalytic residue [active] 884204004819 argininosuccinate lyase; Provisional; Region: PRK02186 884204004820 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 884204004821 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 884204004822 active sites [active] 884204004823 tetramer interface [polypeptide binding]; other site 884204004824 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 884204004825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204004826 catalytic residue [active] 884204004827 dimer interface [polypeptide binding]; other site 884204004828 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 884204004829 putative substrate translocation pore; other site 884204004830 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204004831 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 884204004832 argininosuccinate lyase; Provisional; Region: PRK00855 884204004833 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 884204004834 active sites [active] 884204004835 tetramer interface [polypeptide binding]; other site 884204004836 argininosuccinate synthase; Provisional; Region: PRK13820 884204004837 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 884204004838 ANP binding site [chemical binding]; other site 884204004839 Substrate Binding Site II [chemical binding]; other site 884204004840 Substrate Binding Site I [chemical binding]; other site 884204004841 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 884204004842 active site 884204004843 substrate binding site [chemical binding]; other site 884204004844 cosubstrate binding site; other site 884204004845 catalytic site [active] 884204004846 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204004847 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 884204004848 S-adenosylmethionine binding site [chemical binding]; other site 884204004849 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 884204004850 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 884204004851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204004852 homodimer interface [polypeptide binding]; other site 884204004853 catalytic residue [active] 884204004854 Cupin-like domain; Region: Cupin_8; pfam13621 884204004855 MbtH-like protein; Region: MbtH; cl01279 884204004856 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 884204004857 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204004858 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 884204004859 trimer interface [polypeptide binding]; other site 884204004860 eyelet of channel; other site 884204004861 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 884204004862 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204004863 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204004864 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 884204004865 EamA-like transporter family; Region: EamA; pfam00892 884204004866 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 884204004867 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204004868 dimer interface [polypeptide binding]; other site 884204004869 putative CheW interface [polypeptide binding]; other site 884204004870 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 884204004871 AMP-binding domain protein; Validated; Region: PRK07529 884204004872 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204004873 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 884204004874 acyl-activating enzyme (AAE) consensus motif; other site 884204004875 putative AMP binding site [chemical binding]; other site 884204004876 putative active site [active] 884204004877 putative CoA binding site [chemical binding]; other site 884204004878 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 884204004879 putative substrate translocation pore; other site 884204004880 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 884204004881 S-adenosylmethionine binding site [chemical binding]; other site 884204004882 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 884204004883 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 884204004884 dimer interface [polypeptide binding]; other site 884204004885 conserved gate region; other site 884204004886 putative PBP binding loops; other site 884204004887 ABC-ATPase subunit interface; other site 884204004888 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 884204004889 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204004890 Walker A/P-loop; other site 884204004891 ATP binding site [chemical binding]; other site 884204004892 Q-loop/lid; other site 884204004893 ABC transporter signature motif; other site 884204004894 Walker B; other site 884204004895 D-loop; other site 884204004896 H-loop/switch region; other site 884204004897 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 884204004898 ABC-ATPase subunit interface; other site 884204004899 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 884204004900 arginine deiminase; Provisional; Region: PRK01388 884204004901 ornithine carbamoyltransferase; Validated; Region: PRK02102 884204004902 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 884204004903 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 884204004904 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 884204004905 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 884204004906 putative substrate binding site [chemical binding]; other site 884204004907 nucleotide binding site [chemical binding]; other site 884204004908 nucleotide binding site [chemical binding]; other site 884204004909 homodimer interface [polypeptide binding]; other site 884204004910 short chain dehydrogenase; Provisional; Region: PRK09291 884204004911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204004912 NAD(P) binding site [chemical binding]; other site 884204004913 active site 884204004914 Domain of unknown function (DUF336); Region: DUF336; pfam03928 884204004915 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204004916 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204004917 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 884204004918 putative effector binding pocket; other site 884204004919 putative dimerization interface [polypeptide binding]; other site 884204004920 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 884204004921 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 884204004922 C-terminal domain interface [polypeptide binding]; other site 884204004923 GSH binding site (G-site) [chemical binding]; other site 884204004924 dimer interface [polypeptide binding]; other site 884204004925 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 884204004926 dimer interface [polypeptide binding]; other site 884204004927 N-terminal domain interface [polypeptide binding]; other site 884204004928 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 884204004929 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 884204004930 dimerization interface [polypeptide binding]; other site 884204004931 ligand binding site [chemical binding]; other site 884204004932 MarR family; Region: MarR_2; cl17246 884204004933 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 884204004934 putative cyanate transporter; Provisional; Region: cynX; PRK09705 884204004935 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 884204004936 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 884204004937 active site 884204004938 SAM binding site [chemical binding]; other site 884204004939 homodimer interface [polypeptide binding]; other site 884204004940 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 884204004941 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 884204004942 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 884204004943 active site 884204004944 putative homodimer interface [polypeptide binding]; other site 884204004945 SAM binding site [chemical binding]; other site 884204004946 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 884204004947 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 884204004948 S-adenosylmethionine binding site [chemical binding]; other site 884204004949 precorrin-3B synthase; Region: CobG; TIGR02435 884204004950 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 884204004951 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 884204004952 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 884204004953 Precorrin-8X methylmutase; Region: CbiC; pfam02570 884204004954 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 884204004955 active site 884204004956 SAM binding site [chemical binding]; other site 884204004957 homodimer interface [polypeptide binding]; other site 884204004958 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 884204004959 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 884204004960 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 884204004961 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 884204004962 active site 884204004963 SAM binding site [chemical binding]; other site 884204004964 homodimer interface [polypeptide binding]; other site 884204004965 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 884204004966 active site 884204004967 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 884204004968 aromatic chitin/cellulose binding site residues [chemical binding]; other site 884204004969 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 884204004970 aromatic chitin/cellulose binding site residues [chemical binding]; other site 884204004971 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 884204004972 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 884204004973 nucleophilic elbow; other site 884204004974 catalytic triad; other site 884204004975 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 884204004976 metal ion-dependent adhesion site (MIDAS); other site 884204004977 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 884204004978 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 884204004979 Walker A motif; other site 884204004980 ATP binding site [chemical binding]; other site 884204004981 Walker B motif; other site 884204004982 arginine finger; other site 884204004983 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 884204004984 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 884204004985 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 884204004986 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 884204004987 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 884204004988 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 884204004989 High-affinity nickel-transport protein; Region: NicO; cl00964 884204004990 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 884204004991 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 884204004992 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 884204004993 homodimer interface [polypeptide binding]; other site 884204004994 Walker A motif; other site 884204004995 ATP binding site [chemical binding]; other site 884204004996 hydroxycobalamin binding site [chemical binding]; other site 884204004997 Walker B motif; other site 884204004998 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 884204004999 catalytic triad [active] 884204005000 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 884204005001 catalytic site [active] 884204005002 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 884204005003 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 884204005004 N-terminal plug; other site 884204005005 ligand-binding site [chemical binding]; other site 884204005006 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 884204005007 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204005008 Condensation domain; Region: Condensation; pfam00668 884204005009 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204005010 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204005011 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204005012 acyl-activating enzyme (AAE) consensus motif; other site 884204005013 AMP binding site [chemical binding]; other site 884204005014 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204005015 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204005016 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204005017 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204005018 acyl-activating enzyme (AAE) consensus motif; other site 884204005019 AMP binding site [chemical binding]; other site 884204005020 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204005021 Condensation domain; Region: Condensation; pfam00668 884204005022 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204005023 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204005024 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204005025 acyl-activating enzyme (AAE) consensus motif; other site 884204005026 AMP binding site [chemical binding]; other site 884204005027 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204005028 Condensation domain; Region: Condensation; pfam00668 884204005029 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 884204005030 Condensation domain; Region: Condensation; pfam00668 884204005031 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204005032 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204005033 acyl-activating enzyme (AAE) consensus motif; other site 884204005034 AMP binding site [chemical binding]; other site 884204005035 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204005036 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 884204005037 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 884204005038 Walker A/P-loop; other site 884204005039 ATP binding site [chemical binding]; other site 884204005040 Q-loop/lid; other site 884204005041 ABC transporter signature motif; other site 884204005042 Walker B; other site 884204005043 D-loop; other site 884204005044 H-loop/switch region; other site 884204005045 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 884204005046 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 884204005047 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 884204005048 siderophore binding site; other site 884204005049 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 884204005050 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 884204005051 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 884204005052 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 884204005053 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 884204005054 dimer interface [polypeptide binding]; other site 884204005055 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 884204005056 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 884204005057 ABC-ATPase subunit interface; other site 884204005058 dimer interface [polypeptide binding]; other site 884204005059 putative PBP binding regions; other site 884204005060 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 884204005061 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 884204005062 Walker A/P-loop; other site 884204005063 ATP binding site [chemical binding]; other site 884204005064 Q-loop/lid; other site 884204005065 ABC transporter signature motif; other site 884204005066 Walker B; other site 884204005067 D-loop; other site 884204005068 H-loop/switch region; other site 884204005069 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 884204005070 MbtH-like protein; Region: MbtH; cl01279 884204005071 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 884204005072 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204005073 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 884204005074 short chain dehydrogenase; Provisional; Region: PRK07060 884204005075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204005076 NAD(P) binding site [chemical binding]; other site 884204005077 active site 884204005078 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 884204005079 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 884204005080 NAD(P) binding site [chemical binding]; other site 884204005081 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 884204005082 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204005083 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 884204005084 TM-ABC transporter signature motif; other site 884204005085 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 884204005086 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 884204005087 Walker A/P-loop; other site 884204005088 ATP binding site [chemical binding]; other site 884204005089 Q-loop/lid; other site 884204005090 ABC transporter signature motif; other site 884204005091 Walker B; other site 884204005092 D-loop; other site 884204005093 H-loop/switch region; other site 884204005094 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 884204005095 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 884204005096 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 884204005097 putative ligand binding site [chemical binding]; other site 884204005098 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 884204005099 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 884204005100 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204005101 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 884204005102 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 884204005103 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 884204005104 Ligand Binding Site [chemical binding]; other site 884204005105 Molecular Tunnel; other site 884204005106 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 884204005107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204005108 Walker A/P-loop; other site 884204005109 ATP binding site [chemical binding]; other site 884204005110 Q-loop/lid; other site 884204005111 ABC transporter signature motif; other site 884204005112 Walker B; other site 884204005113 D-loop; other site 884204005114 H-loop/switch region; other site 884204005115 Fimbrial protein; Region: Fimbrial; pfam00419 884204005116 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 884204005117 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 884204005118 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 884204005119 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 884204005120 PapC N-terminal domain; Region: PapC_N; pfam13954 884204005121 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 884204005122 PapC C-terminal domain; Region: PapC_C; pfam13953 884204005123 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 884204005124 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 884204005125 multidrug efflux protein; Reviewed; Region: PRK09577 884204005126 Protein export membrane protein; Region: SecD_SecF; cl14618 884204005127 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 884204005128 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204005129 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204005130 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 884204005131 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204005132 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 884204005133 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 884204005134 Peptidase family M23; Region: Peptidase_M23; pfam01551 884204005135 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 884204005136 dimer interface [polypeptide binding]; other site 884204005137 conserved gate region; other site 884204005138 putative PBP binding loops; other site 884204005139 ABC-ATPase subunit interface; other site 884204005140 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 884204005141 dimer interface [polypeptide binding]; other site 884204005142 conserved gate region; other site 884204005143 putative PBP binding loops; other site 884204005144 ABC-ATPase subunit interface; other site 884204005145 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 884204005146 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 884204005147 substrate binding pocket [chemical binding]; other site 884204005148 membrane-bound complex binding site; other site 884204005149 hinge residues; other site 884204005150 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 884204005151 TadE-like protein; Region: TadE; pfam07811 884204005152 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 884204005153 binding surface 884204005154 TPR motif; other site 884204005155 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 884204005156 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204005157 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 884204005158 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204005159 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 884204005160 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 884204005161 ATP binding site [chemical binding]; other site 884204005162 Walker A motif; other site 884204005163 hexamer interface [polypeptide binding]; other site 884204005164 Walker B motif; other site 884204005165 AAA domain; Region: AAA_31; pfam13614 884204005166 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 884204005167 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 884204005168 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 884204005169 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 884204005170 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 884204005171 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 884204005172 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 884204005173 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 884204005174 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 884204005175 Walker A/P-loop; other site 884204005176 ATP binding site [chemical binding]; other site 884204005177 Q-loop/lid; other site 884204005178 ABC transporter signature motif; other site 884204005179 Walker B; other site 884204005180 D-loop; other site 884204005181 H-loop/switch region; other site 884204005182 NMT1-like family; Region: NMT1_2; pfam13379 884204005183 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 884204005184 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 884204005185 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 884204005186 putative substrate translocation pore; other site 884204005187 SpoVR family protein; Provisional; Region: PRK11767 884204005188 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 884204005189 hypothetical protein; Provisional; Region: PRK05325 884204005190 PrkA family serine protein kinase; Provisional; Region: PRK15455 884204005191 AAA ATPase domain; Region: AAA_16; pfam13191 884204005192 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 884204005193 Tar ligand binding domain homologue; Region: TarH; pfam02203 884204005194 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 884204005195 dimerization interface [polypeptide binding]; other site 884204005196 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 884204005197 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204005198 dimer interface [polypeptide binding]; other site 884204005199 putative CheW interface [polypeptide binding]; other site 884204005200 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 884204005201 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 884204005202 substrate binding site [chemical binding]; other site 884204005203 dimer interface [polypeptide binding]; other site 884204005204 ATP binding site [chemical binding]; other site 884204005205 Transcriptional regulators [Transcription]; Region: PurR; COG1609 884204005206 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 884204005207 DNA binding site [nucleotide binding] 884204005208 domain linker motif; other site 884204005209 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 884204005210 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 884204005211 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204005212 TM-ABC transporter signature motif; other site 884204005213 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 884204005214 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 884204005215 Walker A/P-loop; other site 884204005216 ATP binding site [chemical binding]; other site 884204005217 Q-loop/lid; other site 884204005218 ABC transporter signature motif; other site 884204005219 Walker B; other site 884204005220 D-loop; other site 884204005221 H-loop/switch region; other site 884204005222 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 884204005223 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 884204005224 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 884204005225 ligand binding site [chemical binding]; other site 884204005226 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 884204005227 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204005228 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 884204005229 substrate binding site [chemical binding]; other site 884204005230 dimerization interface [polypeptide binding]; other site 884204005231 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 884204005232 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 884204005233 Walker A/P-loop; other site 884204005234 ATP binding site [chemical binding]; other site 884204005235 Q-loop/lid; other site 884204005236 ABC transporter signature motif; other site 884204005237 Walker B; other site 884204005238 D-loop; other site 884204005239 H-loop/switch region; other site 884204005240 TOBE-like domain; Region: TOBE_3; pfam12857 884204005241 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 884204005242 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 884204005243 dimer interface [polypeptide binding]; other site 884204005244 conserved gate region; other site 884204005245 putative PBP binding loops; other site 884204005246 ABC-ATPase subunit interface; other site 884204005247 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 884204005248 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 884204005249 dimer interface [polypeptide binding]; other site 884204005250 conserved gate region; other site 884204005251 putative PBP binding loops; other site 884204005252 ABC-ATPase subunit interface; other site 884204005253 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 884204005254 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 884204005255 substrate binding pocket [chemical binding]; other site 884204005256 membrane-bound complex binding site; other site 884204005257 LexA repressor; Validated; Region: PRK00215 884204005258 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 884204005259 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 884204005260 Catalytic site [active] 884204005261 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 884204005262 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 884204005263 Ligand Binding Site [chemical binding]; other site 884204005264 nodulation ABC transporter NodI; Provisional; Region: PRK13537 884204005265 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 884204005266 Walker A/P-loop; other site 884204005267 ATP binding site [chemical binding]; other site 884204005268 Q-loop/lid; other site 884204005269 ABC transporter signature motif; other site 884204005270 Walker B; other site 884204005271 D-loop; other site 884204005272 H-loop/switch region; other site 884204005273 ABC-2 type transporter; Region: ABC2_membrane; cl17235 884204005274 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 884204005275 Predicted permease; Region: DUF318; cl17795 884204005276 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 884204005277 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 884204005278 active site 884204005279 catalytic tetrad [active] 884204005280 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 884204005281 CoenzymeA binding site [chemical binding]; other site 884204005282 subunit interaction site [polypeptide binding]; other site 884204005283 PHB binding site; other site 884204005284 Predicted transcriptional regulators [Transcription]; Region: COG1733 884204005285 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 884204005286 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 884204005287 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 884204005288 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 884204005289 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 884204005290 FMN binding site [chemical binding]; other site 884204005291 active site 884204005292 catalytic residues [active] 884204005293 substrate binding site [chemical binding]; other site 884204005294 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 884204005295 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 884204005296 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 884204005297 Walker A/P-loop; other site 884204005298 ATP binding site [chemical binding]; other site 884204005299 Q-loop/lid; other site 884204005300 ABC transporter signature motif; other site 884204005301 Walker B; other site 884204005302 D-loop; other site 884204005303 H-loop/switch region; other site 884204005304 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 884204005305 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 884204005306 dimer interface [polypeptide binding]; other site 884204005307 conserved gate region; other site 884204005308 putative PBP binding loops; other site 884204005309 ABC-ATPase subunit interface; other site 884204005310 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 884204005311 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 884204005312 active site 884204005313 dimer interface [polypeptide binding]; other site 884204005314 non-prolyl cis peptide bond; other site 884204005315 insertion regions; other site 884204005316 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 884204005317 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 884204005318 substrate binding site [chemical binding]; other site 884204005319 oxyanion hole (OAH) forming residues; other site 884204005320 trimer interface [polypeptide binding]; other site 884204005321 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 884204005322 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 884204005323 hypothetical protein; Provisional; Region: PRK02487 884204005324 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 884204005325 nudix motif; other site 884204005326 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 884204005327 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 884204005328 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 884204005329 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 884204005330 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 884204005331 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 884204005332 quinone interaction residues [chemical binding]; other site 884204005333 active site 884204005334 catalytic residues [active] 884204005335 FMN binding site [chemical binding]; other site 884204005336 substrate binding site [chemical binding]; other site 884204005337 cystine transporter subunit; Provisional; Region: PRK11260 884204005338 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 884204005339 substrate binding pocket [chemical binding]; other site 884204005340 membrane-bound complex binding site; other site 884204005341 hinge residues; other site 884204005342 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 884204005343 dimer interface [polypeptide binding]; other site 884204005344 conserved gate region; other site 884204005345 putative PBP binding loops; other site 884204005346 ABC-ATPase subunit interface; other site 884204005347 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 884204005348 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 884204005349 Transcriptional regulators [Transcription]; Region: FadR; COG2186 884204005350 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204005351 DNA-binding site [nucleotide binding]; DNA binding site 884204005352 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 884204005353 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 884204005354 tetramer (dimer of dimers) interface [polypeptide binding]; other site 884204005355 active site 884204005356 dimer interface [polypeptide binding]; other site 884204005357 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 884204005358 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 884204005359 amidase catalytic site [active] 884204005360 Zn binding residues [ion binding]; other site 884204005361 substrate binding site [chemical binding]; other site 884204005362 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 884204005363 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 884204005364 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 884204005365 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 884204005366 ribonuclease R; Region: RNase_R; TIGR02063 884204005367 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 884204005368 RNB domain; Region: RNB; pfam00773 884204005369 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 884204005370 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 884204005371 RNA binding site [nucleotide binding]; other site 884204005372 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204005373 dimer interface [polypeptide binding]; other site 884204005374 putative CheW interface [polypeptide binding]; other site 884204005375 Phosphoesterase family; Region: Phosphoesterase; pfam04185 884204005376 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 884204005377 metal binding site [ion binding]; metal-binding site 884204005378 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 884204005379 Sulfate transporter family; Region: Sulfate_transp; pfam00916 884204005380 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 884204005381 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 884204005382 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 884204005383 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 884204005384 putative sialic acid transporter; Region: 2A0112; TIGR00891 884204005385 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 884204005386 putative substrate translocation pore; other site 884204005387 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204005388 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204005389 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 884204005390 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 884204005391 acyl-activating enzyme (AAE) consensus motif; other site 884204005392 putative AMP binding site [chemical binding]; other site 884204005393 putative active site [active] 884204005394 putative CoA binding site [chemical binding]; other site 884204005395 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 884204005396 bacterial Hfq-like; Region: Hfq; cd01716 884204005397 hexamer interface [polypeptide binding]; other site 884204005398 Sm1 motif; other site 884204005399 RNA binding site [nucleotide binding]; other site 884204005400 Sm2 motif; other site 884204005401 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 884204005402 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 884204005403 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 884204005404 Walker A motif; other site 884204005405 ATP binding site [chemical binding]; other site 884204005406 Walker B motif; other site 884204005407 arginine finger; other site 884204005408 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204005409 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 884204005410 Predicted membrane protein [Function unknown]; Region: COG4655 884204005411 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 884204005412 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 884204005413 TPR repeat; Region: TPR_11; pfam13414 884204005414 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 884204005415 binding surface 884204005416 TPR motif; other site 884204005417 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 884204005418 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204005419 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 884204005420 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204005421 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 884204005422 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 884204005423 ATP binding site [chemical binding]; other site 884204005424 Walker A motif; other site 884204005425 hexamer interface [polypeptide binding]; other site 884204005426 Walker B motif; other site 884204005427 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 884204005428 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 884204005429 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 884204005430 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 884204005431 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 884204005432 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 884204005433 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 884204005434 TadE-like protein; Region: TadE; pfam07811 884204005435 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 884204005436 Flp/Fap pilin component; Region: Flp_Fap; cl01585 884204005437 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 884204005438 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 884204005439 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 884204005440 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 884204005441 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 884204005442 Predicted ATPase [General function prediction only]; Region: COG1485 884204005443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204005444 Walker B; other site 884204005445 D-loop; other site 884204005446 H-loop/switch region; other site 884204005447 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 884204005448 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204005449 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 884204005450 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 884204005451 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 884204005452 E3 interaction surface; other site 884204005453 lipoyl attachment site [posttranslational modification]; other site 884204005454 e3 binding domain; Region: E3_binding; pfam02817 884204005455 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 884204005456 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 884204005457 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 884204005458 TPP-binding site [chemical binding]; other site 884204005459 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 884204005460 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 884204005461 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 884204005462 G1 box; other site 884204005463 putative GEF interaction site [polypeptide binding]; other site 884204005464 GTP/Mg2+ binding site [chemical binding]; other site 884204005465 Switch I region; other site 884204005466 G2 box; other site 884204005467 G3 box; other site 884204005468 Switch II region; other site 884204005469 G4 box; other site 884204005470 G5 box; other site 884204005471 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 884204005472 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 884204005473 Transcriptional regulators [Transcription]; Region: MarR; COG1846 884204005474 MarR family; Region: MarR_2; pfam12802 884204005475 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204005476 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 884204005477 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204005478 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 884204005479 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 884204005480 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 884204005481 putative substrate translocation pore; other site 884204005482 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 884204005483 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 884204005484 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 884204005485 RNA binding site [nucleotide binding]; other site 884204005486 active site 884204005487 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 884204005488 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 884204005489 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 884204005490 translation initiation factor IF-2; Region: IF-2; TIGR00487 884204005491 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 884204005492 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 884204005493 G1 box; other site 884204005494 putative GEF interaction site [polypeptide binding]; other site 884204005495 GTP/Mg2+ binding site [chemical binding]; other site 884204005496 Switch I region; other site 884204005497 G2 box; other site 884204005498 G3 box; other site 884204005499 Switch II region; other site 884204005500 G4 box; other site 884204005501 G5 box; other site 884204005502 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 884204005503 Translation-initiation factor 2; Region: IF-2; pfam11987 884204005504 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 884204005505 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 884204005506 NusA N-terminal domain; Region: NusA_N; pfam08529 884204005507 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 884204005508 RNA binding site [nucleotide binding]; other site 884204005509 homodimer interface [polypeptide binding]; other site 884204005510 NusA-like KH domain; Region: KH_5; pfam13184 884204005511 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 884204005512 G-X-X-G motif; other site 884204005513 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 884204005514 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 884204005515 ribosome maturation protein RimP; Reviewed; Region: PRK00092 884204005516 Sm and related proteins; Region: Sm_like; cl00259 884204005517 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 884204005518 putative oligomer interface [polypeptide binding]; other site 884204005519 putative RNA binding site [nucleotide binding]; other site 884204005520 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 884204005521 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 884204005522 RNA binding surface [nucleotide binding]; other site 884204005523 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 884204005524 probable active site [active] 884204005525 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 884204005526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204005527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204005528 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 884204005529 putative dimerization interface [polypeptide binding]; other site 884204005530 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 884204005531 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 884204005532 Uncharacterized conserved protein [Function unknown]; Region: COG1434 884204005533 putative active site [active] 884204005534 outer membrane protein A; Reviewed; Region: PRK10808 884204005535 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 884204005536 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 884204005537 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 884204005538 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 884204005539 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 884204005540 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 884204005541 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 884204005542 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 884204005543 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 884204005544 DNA binding residues [nucleotide binding] 884204005545 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 884204005546 IHF dimer interface [polypeptide binding]; other site 884204005547 IHF - DNA interface [nucleotide binding]; other site 884204005548 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 884204005549 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 884204005550 putative tRNA-binding site [nucleotide binding]; other site 884204005551 B3/4 domain; Region: B3_4; pfam03483 884204005552 tRNA synthetase B5 domain; Region: B5; smart00874 884204005553 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 884204005554 dimer interface [polypeptide binding]; other site 884204005555 motif 1; other site 884204005556 motif 3; other site 884204005557 motif 2; other site 884204005558 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 884204005559 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 884204005560 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 884204005561 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 884204005562 dimer interface [polypeptide binding]; other site 884204005563 motif 1; other site 884204005564 active site 884204005565 motif 2; other site 884204005566 motif 3; other site 884204005567 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 884204005568 23S rRNA binding site [nucleotide binding]; other site 884204005569 L21 binding site [polypeptide binding]; other site 884204005570 L13 binding site [polypeptide binding]; other site 884204005571 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 884204005572 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 884204005573 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 884204005574 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 884204005575 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 884204005576 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 884204005577 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 884204005578 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 884204005579 active site 884204005580 dimer interface [polypeptide binding]; other site 884204005581 motif 1; other site 884204005582 motif 2; other site 884204005583 motif 3; other site 884204005584 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 884204005585 anticodon binding site; other site 884204005586 HD domain; Region: HD_4; pfam13328 884204005587 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 884204005588 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 884204005589 synthetase active site [active] 884204005590 NTP binding site [chemical binding]; other site 884204005591 metal binding site [ion binding]; metal-binding site 884204005592 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 884204005593 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 884204005594 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 884204005595 homotrimer interaction site [polypeptide binding]; other site 884204005596 putative active site [active] 884204005597 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204005598 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204005599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204005600 transcriptional activator TtdR; Provisional; Region: PRK09801 884204005601 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 884204005602 putative effector binding pocket; other site 884204005603 dimerization interface [polypeptide binding]; other site 884204005604 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 884204005605 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 884204005606 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 884204005607 short chain dehydrogenase; Provisional; Region: PRK07041 884204005608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204005609 NAD(P) binding site [chemical binding]; other site 884204005610 active site 884204005611 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 884204005612 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 884204005613 PAS domain; Region: PAS_9; pfam13426 884204005614 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 884204005615 putative active site [active] 884204005616 heme pocket [chemical binding]; other site 884204005617 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 884204005618 DNA binding residues [nucleotide binding] 884204005619 dimerization interface [polypeptide binding]; other site 884204005620 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 884204005621 active site 884204005622 short chain dehydrogenase; Provisional; Region: PRK06949 884204005623 classical (c) SDRs; Region: SDR_c; cd05233 884204005624 NAD(P) binding site [chemical binding]; other site 884204005625 active site 884204005626 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 884204005627 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 884204005628 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 884204005629 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 884204005630 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 884204005631 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 884204005632 Tetramer interface [polypeptide binding]; other site 884204005633 active site 884204005634 FMN-binding site [chemical binding]; other site 884204005635 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 884204005636 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 884204005637 putative acyl-acceptor binding pocket; other site 884204005638 FOG: CBS domain [General function prediction only]; Region: COG0517 884204005639 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 884204005640 Protein of unknown function (DUF962); Region: DUF962; cl01879 884204005641 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 884204005642 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 884204005643 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 884204005644 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 884204005645 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 884204005646 FAD binding domain; Region: FAD_binding_4; pfam01565 884204005647 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 884204005648 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 884204005649 active site 884204005650 metal binding site [ion binding]; metal-binding site 884204005651 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 884204005652 transcriptional regulator; Provisional; Region: PRK10632 884204005653 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204005654 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 884204005655 putative effector binding pocket; other site 884204005656 dimerization interface [polypeptide binding]; other site 884204005657 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204005658 Fusaric acid resistance protein family; Region: FUSC; pfam04632 884204005659 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 884204005660 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 884204005661 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 884204005662 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204005663 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204005664 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 884204005665 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204005666 dimer interface [polypeptide binding]; other site 884204005667 putative CheW interface [polypeptide binding]; other site 884204005668 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 884204005669 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204005670 putative substrate translocation pore; other site 884204005671 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 884204005672 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 884204005673 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 884204005674 Part of AAA domain; Region: AAA_19; pfam13245 884204005675 Family description; Region: UvrD_C_2; pfam13538 884204005676 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 884204005677 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 884204005678 HIGH motif; other site 884204005679 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 884204005680 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 884204005681 active site 884204005682 KMSKS motif; other site 884204005683 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 884204005684 tRNA binding surface [nucleotide binding]; other site 884204005685 anticodon binding site; other site 884204005686 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 884204005687 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 884204005688 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 884204005689 active site 884204005690 tetramer interface; other site 884204005691 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 884204005692 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 884204005693 CHASE2 domain; Region: CHASE2; pfam05226 884204005694 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 884204005695 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 884204005696 dimer interface [polypeptide binding]; other site 884204005697 phosphorylation site [posttranslational modification] 884204005698 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 884204005699 ATP binding site [chemical binding]; other site 884204005700 Mg2+ binding site [ion binding]; other site 884204005701 G-X-G motif; other site 884204005702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 884204005703 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 884204005704 FecR protein; Region: FecR; pfam04773 884204005705 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204005706 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 884204005707 active site 884204005708 phosphorylation site [posttranslational modification] 884204005709 intermolecular recognition site; other site 884204005710 dimerization interface [polypeptide binding]; other site 884204005711 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 884204005712 DNA binding site [nucleotide binding] 884204005713 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 884204005714 CPxP motif; other site 884204005715 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 884204005716 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 884204005717 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 884204005718 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 884204005719 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 884204005720 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 884204005721 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 884204005722 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 884204005723 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 884204005724 putative active site [active] 884204005725 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 884204005726 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 884204005727 putative ligand binding site [chemical binding]; other site 884204005728 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204005729 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 884204005730 TM-ABC transporter signature motif; other site 884204005731 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 884204005732 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 884204005733 Walker A/P-loop; other site 884204005734 ATP binding site [chemical binding]; other site 884204005735 Q-loop/lid; other site 884204005736 ABC transporter signature motif; other site 884204005737 Walker B; other site 884204005738 D-loop; other site 884204005739 H-loop/switch region; other site 884204005740 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 884204005741 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 884204005742 substrate binding site [chemical binding]; other site 884204005743 ATP binding site [chemical binding]; other site 884204005744 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 884204005745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 884204005746 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 884204005747 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204005748 PYR/PP interface [polypeptide binding]; other site 884204005749 dimer interface [polypeptide binding]; other site 884204005750 TPP binding site [chemical binding]; other site 884204005751 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204005752 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 884204005753 TPP-binding site; other site 884204005754 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 884204005755 KduI/IolB family; Region: KduI; pfam04962 884204005756 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 884204005757 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 884204005758 Walker A/P-loop; other site 884204005759 ATP binding site [chemical binding]; other site 884204005760 Q-loop/lid; other site 884204005761 ABC transporter signature motif; other site 884204005762 Walker B; other site 884204005763 D-loop; other site 884204005764 H-loop/switch region; other site 884204005765 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 884204005766 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 884204005767 TM-ABC transporter signature motif; other site 884204005768 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 884204005769 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 884204005770 Walker A/P-loop; other site 884204005771 ATP binding site [chemical binding]; other site 884204005772 Q-loop/lid; other site 884204005773 ABC transporter signature motif; other site 884204005774 Walker B; other site 884204005775 D-loop; other site 884204005776 H-loop/switch region; other site 884204005777 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 884204005778 TM-ABC transporter signature motif; other site 884204005779 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 884204005780 active site 884204005781 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 884204005782 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 884204005783 putative active site [active] 884204005784 metal binding site [ion binding]; metal-binding site 884204005785 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 884204005786 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 884204005787 nudix motif; other site 884204005788 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 884204005789 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 884204005790 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 884204005791 protein binding site [polypeptide binding]; other site 884204005792 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 884204005793 protein binding site [polypeptide binding]; other site 884204005794 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 884204005795 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204005796 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204005797 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 884204005798 dimerization interface [polypeptide binding]; other site 884204005799 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 884204005800 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 884204005801 motif 1; other site 884204005802 active site 884204005803 motif 2; other site 884204005804 motif 3; other site 884204005805 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 884204005806 DHHA1 domain; Region: DHHA1; pfam02272 884204005807 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 884204005808 CoA-transferase family III; Region: CoA_transf_3; pfam02515 884204005809 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 884204005810 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 884204005811 active site 884204005812 HIGH motif; other site 884204005813 nucleotide binding site [chemical binding]; other site 884204005814 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 884204005815 KMSKS motif; other site 884204005816 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 884204005817 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 884204005818 nudix motif; other site 884204005819 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 884204005820 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 884204005821 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 884204005822 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 884204005823 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 884204005824 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 884204005825 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 884204005826 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 884204005827 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 884204005828 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 884204005829 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 884204005830 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 884204005831 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204005832 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204005833 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 884204005834 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 884204005835 putative substrate translocation pore; other site 884204005836 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204005837 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204005838 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 884204005839 active site 884204005840 phosphorylation site [posttranslational modification] 884204005841 intermolecular recognition site; other site 884204005842 dimerization interface [polypeptide binding]; other site 884204005843 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 884204005844 DNA binding residues [nucleotide binding] 884204005845 dimerization interface [polypeptide binding]; other site 884204005846 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 884204005847 dimer interface [polypeptide binding]; other site 884204005848 phosphorylation site [posttranslational modification] 884204005849 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 884204005850 ATP binding site [chemical binding]; other site 884204005851 Mg2+ binding site [ion binding]; other site 884204005852 G-X-G motif; other site 884204005853 Response regulator receiver domain; Region: Response_reg; pfam00072 884204005854 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 884204005855 active site 884204005856 phosphorylation site [posttranslational modification] 884204005857 intermolecular recognition site; other site 884204005858 dimerization interface [polypeptide binding]; other site 884204005859 Spore Coat Protein U domain; Region: SCPU; pfam05229 884204005860 Spore Coat Protein U domain; Region: SCPU; pfam05229 884204005861 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 884204005862 PapC N-terminal domain; Region: PapC_N; pfam13954 884204005863 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 884204005864 PapC C-terminal domain; Region: PapC_C; pfam13953 884204005865 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 884204005866 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 884204005867 Spore Coat Protein U domain; Region: SCPU; pfam05229 884204005868 Spore Coat Protein U domain; Region: SCPU; pfam05229 884204005869 Spore Coat Protein U domain; Region: SCPU; pfam05229 884204005870 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 884204005871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204005872 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 884204005873 dimerization interface [polypeptide binding]; other site 884204005874 substrate binding pocket [chemical binding]; other site 884204005875 benzoate transport; Region: 2A0115; TIGR00895 884204005876 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 884204005877 putative substrate translocation pore; other site 884204005878 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 884204005879 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 884204005880 active site 884204005881 H-NS histone family; Region: Histone_HNS; pfam00816 884204005882 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204005883 manganese transport protein MntH; Reviewed; Region: PRK00701 884204005884 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 884204005885 Transposase, Mutator family; Region: Transposase_mut; pfam00872 884204005886 Integrase core domain; Region: rve_3; pfam13683 884204005887 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 884204005888 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 884204005889 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204005890 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204005891 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 884204005892 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 884204005893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 884204005894 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204005895 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204005896 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 884204005897 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 884204005898 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 884204005899 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 884204005900 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 884204005901 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 884204005902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 884204005903 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204005904 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204005905 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 884204005906 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 884204005907 PAAR motif; Region: PAAR_motif; pfam05488 884204005908 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 884204005909 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 884204005910 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 884204005911 Ricin-type beta-trefoil; Region: RICIN; smart00458 884204005912 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; cd00161 884204005913 putative sugar binding sites [chemical binding]; other site 884204005914 Q-X-W motif; other site 884204005915 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 884204005916 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 884204005917 Galactose oxidase, central domain; Region: Kelch_3; cl02701 884204005918 Kelch motif; Region: Kelch_6; pfam13964 884204005919 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 884204005920 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 884204005921 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 884204005922 Cu(I) binding site [ion binding]; other site 884204005923 H-NS histone family; Region: Histone_HNS; pfam00816 884204005924 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204005925 TPR repeat; Region: TPR_11; pfam13414 884204005926 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 884204005927 binding surface 884204005928 TPR motif; other site 884204005929 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 884204005930 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204005931 ligand binding site [chemical binding]; other site 884204005932 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 884204005933 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 884204005934 trimer interface [polypeptide binding]; other site 884204005935 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 884204005936 trimer interface [polypeptide binding]; other site 884204005937 YadA-like C-terminal region; Region: YadA; pfam03895 884204005938 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204005939 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 884204005940 active site 884204005941 phosphorylation site [posttranslational modification] 884204005942 intermolecular recognition site; other site 884204005943 dimerization interface [polypeptide binding]; other site 884204005944 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 884204005945 DNA binding site [nucleotide binding] 884204005946 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 884204005947 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 884204005948 Protein of unknown function (DUF3955); Region: DUF3955; pfam13127 884204005949 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204005950 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 884204005951 active site 884204005952 phosphorylation site [posttranslational modification] 884204005953 intermolecular recognition site; other site 884204005954 dimerization interface [polypeptide binding]; other site 884204005955 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 884204005956 DNA binding site [nucleotide binding] 884204005957 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204005958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204005959 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 884204005960 dimerization interface [polypeptide binding]; other site 884204005961 Glycoside hydrolase family 44; Region: Glyco_hydro_44; pfam12891 884204005962 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 884204005963 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 884204005964 Interdomain contacts; other site 884204005965 Cytokine receptor motif; other site 884204005966 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 884204005967 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 884204005968 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 884204005969 active site 884204005970 homodimer interface [polypeptide binding]; other site 884204005971 catalytic site [active] 884204005972 acceptor binding site [chemical binding]; other site 884204005973 trehalose synthase; Region: treS_nterm; TIGR02456 884204005974 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 884204005975 active site 884204005976 catalytic site [active] 884204005977 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 884204005978 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 884204005979 glycogen branching enzyme; Provisional; Region: PRK05402 884204005980 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 884204005981 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 884204005982 active site 884204005983 catalytic site [active] 884204005984 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 884204005985 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 884204005986 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 884204005987 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 884204005988 active site 884204005989 catalytic site [active] 884204005990 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 884204005991 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 884204005992 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 884204005993 active site 884204005994 catalytic site [active] 884204005995 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 884204005996 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 884204005997 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 884204005998 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 884204005999 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 884204006000 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 884204006001 active site 884204006002 catalytic site [active] 884204006003 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 884204006004 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 884204006005 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 884204006006 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204006007 DNA-binding site [nucleotide binding]; DNA binding site 884204006008 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 884204006009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204006010 homodimer interface [polypeptide binding]; other site 884204006011 catalytic residue [active] 884204006012 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 884204006013 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 884204006014 DNA binding residues [nucleotide binding] 884204006015 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 884204006016 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 884204006017 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 884204006018 Leucine carboxyl methyltransferase; Region: LCM; cl01306 884204006019 PAAR motif; Region: PAAR_motif; pfam05488 884204006020 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 884204006021 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 884204006022 DNA binding site [nucleotide binding] 884204006023 active site 884204006024 Int/Topo IB signature motif; other site 884204006025 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 884204006026 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 884204006027 active site 884204006028 catalytic residues [active] 884204006029 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 884204006030 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 884204006031 Peptidase family M23; Region: Peptidase_M23; pfam01551 884204006032 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 884204006033 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 884204006034 active site 884204006035 acyl-activating enzyme (AAE) consensus motif; other site 884204006036 putative CoA binding site [chemical binding]; other site 884204006037 AMP binding site [chemical binding]; other site 884204006038 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 884204006039 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 884204006040 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 884204006041 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 884204006042 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 884204006043 catalytic core [active] 884204006044 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 884204006045 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 884204006046 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 884204006047 PAAR motif; Region: PAAR_motif; pfam05488 884204006048 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 884204006049 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 884204006050 catalytic residue [active] 884204006051 Phage-related protein, tail component [Function unknown]; Region: COG4733 884204006052 Putative phage tail protein; Region: Phage-tail_3; pfam13550 884204006053 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 884204006054 Interdomain contacts; other site 884204006055 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 884204006056 Phage-related protein, tail component [Function unknown]; Region: COG4723 884204006057 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 884204006058 MPN+ (JAMM) motif; other site 884204006059 Zinc-binding site [ion binding]; other site 884204006060 NlpC/P60 family; Region: NLPC_P60; cl17555 884204006061 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 884204006062 Phage-related protein [Function unknown]; Region: gp18; COG4672 884204006063 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 884204006064 Phage minor tail protein; Region: Phage_min_tail; pfam05939 884204006065 tape measure domain; Region: tape_meas_nterm; TIGR02675 884204006066 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 884204006067 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 884204006068 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 884204006069 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 884204006070 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 884204006071 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 884204006072 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 884204006073 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 884204006074 oligomerization interface [polypeptide binding]; other site 884204006075 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 884204006076 Phage capsid family; Region: Phage_capsid; pfam05065 884204006077 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 884204006078 Phage-related protein [Function unknown]; Region: COG4695 884204006079 Phage portal protein; Region: Phage_portal; pfam04860 884204006080 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 884204006081 Phage terminase, small subunit; Region: Terminase_4; cl01525 884204006082 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 884204006083 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 884204006084 active site 884204006085 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 884204006086 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204006087 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 884204006088 non-specific DNA binding site [nucleotide binding]; other site 884204006089 salt bridge; other site 884204006090 sequence-specific DNA binding site [nucleotide binding]; other site 884204006091 Divergent AAA domain; Region: AAA_4; pfam04326 884204006092 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 884204006093 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 884204006094 Helix-turn-helix domain; Region: HTH_36; pfam13730 884204006095 Helix-turn-helix domain; Region: HTH_36; pfam13730 884204006096 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 884204006097 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 884204006098 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 884204006099 cofactor binding site; other site 884204006100 DNA binding site [nucleotide binding] 884204006101 substrate interaction site [chemical binding]; other site 884204006102 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 884204006103 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 884204006104 Domain of unknown function (DUF1896); Region: DUF1896; pfam08989 884204006105 citrate-proton symporter; Provisional; Region: PRK15075 884204006106 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 884204006107 putative substrate translocation pore; other site 884204006108 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 884204006109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204006110 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 884204006111 dimerization interface [polypeptide binding]; other site 884204006112 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 884204006113 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 884204006114 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 884204006115 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 884204006116 dimer interface [polypeptide binding]; other site 884204006117 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 884204006118 active site 884204006119 Int/Topo IB signature motif; other site 884204006120 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 884204006121 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 884204006122 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 884204006123 polyphosphate kinase; Provisional; Region: PRK05443 884204006124 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 884204006125 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 884204006126 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 884204006127 putative active site [active] 884204006128 catalytic site [active] 884204006129 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 884204006130 putative domain interface [polypeptide binding]; other site 884204006131 putative active site [active] 884204006132 catalytic site [active] 884204006133 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 884204006134 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 884204006135 dimer interface [polypeptide binding]; other site 884204006136 phosphorylation site [posttranslational modification] 884204006137 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 884204006138 ATP binding site [chemical binding]; other site 884204006139 Mg2+ binding site [ion binding]; other site 884204006140 G-X-G motif; other site 884204006141 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 884204006142 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 884204006143 active site 884204006144 phosphorylation site [posttranslational modification] 884204006145 intermolecular recognition site; other site 884204006146 dimerization interface [polypeptide binding]; other site 884204006147 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 884204006148 DNA binding site [nucleotide binding] 884204006149 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 884204006150 PhoU domain; Region: PhoU; pfam01895 884204006151 PhoU domain; Region: PhoU; pfam01895 884204006152 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 884204006153 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 884204006154 Walker A/P-loop; other site 884204006155 ATP binding site [chemical binding]; other site 884204006156 Q-loop/lid; other site 884204006157 ABC transporter signature motif; other site 884204006158 Walker B; other site 884204006159 D-loop; other site 884204006160 H-loop/switch region; other site 884204006161 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 884204006162 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 884204006163 dimer interface [polypeptide binding]; other site 884204006164 conserved gate region; other site 884204006165 putative PBP binding loops; other site 884204006166 ABC-ATPase subunit interface; other site 884204006167 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 884204006168 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 884204006169 dimer interface [polypeptide binding]; other site 884204006170 conserved gate region; other site 884204006171 putative PBP binding loops; other site 884204006172 ABC-ATPase subunit interface; other site 884204006173 PBP superfamily domain; Region: PBP_like_2; cl17296 884204006174 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 884204006175 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 884204006176 active site 884204006177 substrate binding site [chemical binding]; other site 884204006178 metal binding site [ion binding]; metal-binding site 884204006179 dihydropteroate synthase; Region: DHPS; TIGR01496 884204006180 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 884204006181 substrate binding pocket [chemical binding]; other site 884204006182 dimer interface [polypeptide binding]; other site 884204006183 inhibitor binding site; inhibition site 884204006184 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 884204006185 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 884204006186 Walker A motif; other site 884204006187 ATP binding site [chemical binding]; other site 884204006188 Walker B motif; other site 884204006189 arginine finger; other site 884204006190 Peptidase family M41; Region: Peptidase_M41; pfam01434 884204006191 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 884204006192 FtsJ-like methyltransferase; Region: FtsJ; cl17430 884204006193 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 884204006194 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 884204006195 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 884204006196 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 884204006197 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 884204006198 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 884204006199 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 884204006200 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 884204006201 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 884204006202 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 884204006203 ATP-grasp domain; Region: ATP-grasp_4; cl17255 884204006204 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 884204006205 IMP binding site; other site 884204006206 dimer interface [polypeptide binding]; other site 884204006207 interdomain contacts; other site 884204006208 partial ornithine binding site; other site 884204006209 leucine export protein LeuE; Provisional; Region: PRK10958 884204006210 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 884204006211 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 884204006212 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 884204006213 catalytic site [active] 884204006214 subunit interface [polypeptide binding]; other site 884204006215 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 884204006216 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204006217 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204006218 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 884204006219 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204006220 putative substrate translocation pore; other site 884204006221 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 884204006222 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 884204006223 N-acetyl-D-glucosamine binding site [chemical binding]; other site 884204006224 catalytic residue [active] 884204006225 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 884204006226 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 884204006227 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 884204006228 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 884204006229 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 884204006230 RNA/DNA hybrid binding site [nucleotide binding]; other site 884204006231 active site 884204006232 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 884204006233 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 884204006234 active site 884204006235 catalytic site [active] 884204006236 substrate binding site [chemical binding]; other site 884204006237 hypothetical protein; Provisional; Region: PRK02237 884204006238 proline/glycine betaine transporter; Provisional; Region: PRK10642 884204006239 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 884204006240 putative substrate translocation pore; other site 884204006241 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 884204006242 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 884204006243 C-terminal domain interface [polypeptide binding]; other site 884204006244 GSH binding site (G-site) [chemical binding]; other site 884204006245 dimer interface [polypeptide binding]; other site 884204006246 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 884204006247 N-terminal domain interface [polypeptide binding]; other site 884204006248 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 884204006249 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 884204006250 putative active site [active] 884204006251 catalytic site [active] 884204006252 Acyl transferase domain; Region: Acyl_transf_1; cl08282 884204006253 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 884204006254 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 884204006255 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 884204006256 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 884204006257 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 884204006258 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 884204006259 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 884204006260 Coenzyme A transferase; Region: CoA_trans; cl17247 884204006261 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 884204006262 Malonate transporter MadL subunit; Region: MadL; cl04273 884204006263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204006264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204006265 LysR substrate binding domain; Region: LysR_substrate; pfam03466 884204006266 dimerization interface [polypeptide binding]; other site 884204006267 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 884204006268 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 884204006269 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 884204006270 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 884204006271 active site 884204006272 substrate-binding site [chemical binding]; other site 884204006273 metal-binding site [ion binding] 884204006274 GTP binding site [chemical binding]; other site 884204006275 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 884204006276 dimerization interface [polypeptide binding]; other site 884204006277 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 884204006278 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 884204006279 putative dimer interface [polypeptide binding]; other site 884204006280 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 884204006281 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 884204006282 putative dimer interface [polypeptide binding]; other site 884204006283 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 884204006284 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204006285 DNA-binding site [nucleotide binding]; DNA binding site 884204006286 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 884204006287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204006288 homodimer interface [polypeptide binding]; other site 884204006289 catalytic residue [active] 884204006290 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 884204006291 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 884204006292 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 884204006293 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 884204006294 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 884204006295 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 884204006296 short chain dehydrogenase; Provisional; Region: PRK12744 884204006297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204006298 NAD(P) binding site [chemical binding]; other site 884204006299 active site 884204006300 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204006301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204006302 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 884204006303 putative effector binding pocket; other site 884204006304 putative dimerization interface [polypeptide binding]; other site 884204006305 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 884204006306 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 884204006307 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 884204006308 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 884204006309 glutaminase active site [active] 884204006310 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 884204006311 dimer interface [polypeptide binding]; other site 884204006312 active site 884204006313 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 884204006314 dimer interface [polypeptide binding]; other site 884204006315 active site 884204006316 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204006317 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 884204006318 putative DNA binding site [nucleotide binding]; other site 884204006319 putative Zn2+ binding site [ion binding]; other site 884204006320 AsnC family; Region: AsnC_trans_reg; pfam01037 884204006321 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 884204006322 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204006323 DNA-binding site [nucleotide binding]; DNA binding site 884204006324 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 884204006325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204006326 homodimer interface [polypeptide binding]; other site 884204006327 catalytic residue [active] 884204006328 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 884204006329 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 884204006330 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 884204006331 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 884204006332 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 884204006333 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204006334 metal binding site [ion binding]; metal-binding site 884204006335 active site 884204006336 I-site; other site 884204006337 Transcriptional regulators [Transcription]; Region: PurR; COG1609 884204006338 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 884204006339 DNA binding site [nucleotide binding] 884204006340 domain linker motif; other site 884204006341 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 884204006342 putative dimerization interface [polypeptide binding]; other site 884204006343 putative ligand binding site [chemical binding]; other site 884204006344 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 884204006345 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 884204006346 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 884204006347 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 884204006348 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 884204006349 putative PBP binding loops; other site 884204006350 ABC-ATPase subunit interface; other site 884204006351 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 884204006352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204006353 Walker A/P-loop; other site 884204006354 ATP binding site [chemical binding]; other site 884204006355 Q-loop/lid; other site 884204006356 ABC transporter signature motif; other site 884204006357 Walker B; other site 884204006358 D-loop; other site 884204006359 H-loop/switch region; other site 884204006360 TOBE domain; Region: TOBE_2; pfam08402 884204006361 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 884204006362 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 884204006363 active site 884204006364 metal binding site [ion binding]; metal-binding site 884204006365 hexamer interface [polypeptide binding]; other site 884204006366 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 884204006367 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 884204006368 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 884204006369 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 884204006370 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 884204006371 EamA-like transporter family; Region: EamA; pfam00892 884204006372 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 884204006373 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 884204006374 Moco binding site; other site 884204006375 metal coordination site [ion binding]; other site 884204006376 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 884204006377 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 884204006378 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 884204006379 ThiC-associated domain; Region: ThiC-associated; pfam13667 884204006380 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 884204006381 EamA-like transporter family; Region: EamA; pfam00892 884204006382 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 884204006383 EamA-like transporter family; Region: EamA; pfam00892 884204006384 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 884204006385 hypothetical protein; Provisional; Region: PRK09256 884204006386 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 884204006387 AAA domain; Region: AAA_30; pfam13604 884204006388 Family description; Region: UvrD_C_2; pfam13538 884204006389 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 884204006390 Family description; Region: UvrD_C_2; pfam13538 884204006391 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 884204006392 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 884204006393 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 884204006394 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 884204006395 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 884204006396 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 884204006397 putative proline-specific permease; Provisional; Region: proY; PRK10580 884204006398 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 884204006399 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 884204006400 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 884204006401 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 884204006402 ABC-ATPase subunit interface; other site 884204006403 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 884204006404 ABC-ATPase subunit interface; other site 884204006405 putative PBP binding loops; other site 884204006406 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 884204006407 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 884204006408 Walker A/P-loop; other site 884204006409 ATP binding site [chemical binding]; other site 884204006410 Q-loop/lid; other site 884204006411 ABC transporter signature motif; other site 884204006412 Walker B; other site 884204006413 D-loop; other site 884204006414 H-loop/switch region; other site 884204006415 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204006416 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 884204006417 putative DNA binding site [nucleotide binding]; other site 884204006418 putative Zn2+ binding site [ion binding]; other site 884204006419 AsnC family; Region: AsnC_trans_reg; pfam01037 884204006420 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 884204006421 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 884204006422 NADH(P)-binding; Region: NAD_binding_10; pfam13460 884204006423 NAD binding site [chemical binding]; other site 884204006424 putative active site [active] 884204006425 substrate binding site [chemical binding]; other site 884204006426 Predicted transcriptional regulator [Transcription]; Region: COG1959 884204006427 Transcriptional regulator; Region: Rrf2; pfam02082 884204006428 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 884204006429 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 884204006430 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204006431 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204006432 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 884204006433 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204006434 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204006435 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 884204006436 Protein export membrane protein; Region: SecD_SecF; cl14618 884204006437 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 884204006438 Protein export membrane protein; Region: SecD_SecF; cl14618 884204006439 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 884204006440 NADH(P)-binding; Region: NAD_binding_10; pfam13460 884204006441 NAD(P) binding site [chemical binding]; other site 884204006442 putative active site [active] 884204006443 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 884204006444 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 884204006445 catalytic triad [active] 884204006446 PAS domain; Region: PAS_9; pfam13426 884204006447 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 884204006448 putative active site [active] 884204006449 heme pocket [chemical binding]; other site 884204006450 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204006451 metal binding site [ion binding]; metal-binding site 884204006452 active site 884204006453 I-site; other site 884204006454 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 884204006455 HDOD domain; Region: HDOD; pfam08668 884204006456 Cytochrome c553 [Energy production and conversion]; Region: COG2863 884204006457 Cytochrome c; Region: Cytochrom_C; cl11414 884204006458 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 884204006459 Low-spin heme binding site [chemical binding]; other site 884204006460 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 884204006461 Subunit I/II interface [polypeptide binding]; other site 884204006462 Putative Q-pathway; other site 884204006463 Putative D-pathway homolog; other site 884204006464 Putative alternate electron transfer pathway; other site 884204006465 Putative water exit pathway; other site 884204006466 Binuclear center (active site) [active] 884204006467 Putative K-pathway homolog; other site 884204006468 Putative proton exit pathway; other site 884204006469 Subunit I/IIa interface [polypeptide binding]; other site 884204006470 Electron transfer pathway; other site 884204006471 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 884204006472 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 884204006473 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204006474 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204006475 Cytochrome c; Region: Cytochrom_C; pfam00034 884204006476 Cytochrome c; Region: Cytochrom_C; cl11414 884204006477 Cytochrome c; Region: Cytochrom_C; cl11414 884204006478 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 884204006479 catalytic motif [active] 884204006480 Catalytic residue [active] 884204006481 Aspartyl protease; Region: Asp_protease_2; pfam13650 884204006482 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 884204006483 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 884204006484 Histidine kinase; Region: HisKA_3; pfam07730 884204006485 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 884204006486 ATP binding site [chemical binding]; other site 884204006487 Mg2+ binding site [ion binding]; other site 884204006488 G-X-G motif; other site 884204006489 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 884204006490 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 884204006491 substrate binding pocket [chemical binding]; other site 884204006492 membrane-bound complex binding site; other site 884204006493 hinge residues; other site 884204006494 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 884204006495 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 884204006496 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 884204006497 ligand binding site [chemical binding]; other site 884204006498 NAD binding site [chemical binding]; other site 884204006499 tetramer interface [polypeptide binding]; other site 884204006500 catalytic site [active] 884204006501 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 884204006502 L-serine binding site [chemical binding]; other site 884204006503 ACT domain interface; other site 884204006504 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 884204006505 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204006506 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204006507 Fatty acid desaturase; Region: FA_desaturase; pfam00487 884204006508 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 884204006509 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 884204006510 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 884204006511 active site 884204006512 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 884204006513 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204006514 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 884204006515 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 884204006516 DNA binding residues [nucleotide binding] 884204006517 dimerization interface [polypeptide binding]; other site 884204006518 Predicted membrane protein [Function unknown]; Region: COG3235 884204006519 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 884204006520 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 884204006521 putative active site [active] 884204006522 Zn binding site [ion binding]; other site 884204006523 hypothetical protein; Validated; Region: PRK02101 884204006524 PIN domain; Region: PIN_3; pfam13470 884204006525 PIN domain; Region: PIN_3; cl17397 884204006526 methionine aminotransferase; Validated; Region: PRK09082 884204006527 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 884204006528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204006529 homodimer interface [polypeptide binding]; other site 884204006530 catalytic residue [active] 884204006531 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 884204006532 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 884204006533 C-terminal domain interface [polypeptide binding]; other site 884204006534 GSH binding site (G-site) [chemical binding]; other site 884204006535 dimer interface [polypeptide binding]; other site 884204006536 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 884204006537 putative N-terminal domain interface [polypeptide binding]; other site 884204006538 putative dimer interface [polypeptide binding]; other site 884204006539 putative substrate binding pocket (H-site) [chemical binding]; other site 884204006540 enoyl-CoA hydratase; Provisional; Region: PRK07511 884204006541 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 884204006542 substrate binding site [chemical binding]; other site 884204006543 oxyanion hole (OAH) forming residues; other site 884204006544 trimer interface [polypeptide binding]; other site 884204006545 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 884204006546 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 884204006547 catalytic core [active] 884204006548 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 884204006549 putative active site [active] 884204006550 putative substrate binding site [chemical binding]; other site 884204006551 ATP binding site [chemical binding]; other site 884204006552 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204006553 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 884204006554 FAD binding site [chemical binding]; other site 884204006555 substrate binding site [chemical binding]; other site 884204006556 catalytic base [active] 884204006557 Right handed beta helix region; Region: Beta_helix; pfam13229 884204006558 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 884204006559 putative active site [active] 884204006560 putative catalytic site [active] 884204006561 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 884204006562 putative active site [active] 884204006563 putative catalytic site [active] 884204006564 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 884204006565 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 884204006566 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 884204006567 active site 884204006568 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 884204006569 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 884204006570 FAD binding site [chemical binding]; other site 884204006571 substrate binding site [chemical binding]; other site 884204006572 catalytic base [active] 884204006573 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 884204006574 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 884204006575 dimer interface [polypeptide binding]; other site 884204006576 ADP-ribose binding site [chemical binding]; other site 884204006577 active site 884204006578 nudix motif; other site 884204006579 metal binding site [ion binding]; metal-binding site 884204006580 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 884204006581 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 884204006582 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 884204006583 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 884204006584 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 884204006585 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 884204006586 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 884204006587 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 884204006588 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 884204006589 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 884204006590 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 884204006591 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 884204006592 4Fe-4S binding domain; Region: Fer4; cl02805 884204006593 4Fe-4S binding domain; Region: Fer4; pfam00037 884204006594 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 884204006595 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 884204006596 NADH dehydrogenase subunit G; Validated; Region: PRK09129 884204006597 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 884204006598 catalytic loop [active] 884204006599 iron binding site [ion binding]; other site 884204006600 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 884204006601 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 884204006602 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 884204006603 SLBB domain; Region: SLBB; pfam10531 884204006604 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 884204006605 NADH dehydrogenase subunit E; Validated; Region: PRK07539 884204006606 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 884204006607 putative dimer interface [polypeptide binding]; other site 884204006608 [2Fe-2S] cluster binding site [ion binding]; other site 884204006609 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 884204006610 NADH dehydrogenase subunit D; Validated; Region: PRK06075 884204006611 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 884204006612 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 884204006613 NADH dehydrogenase subunit B; Validated; Region: PRK06411 884204006614 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 884204006615 Preprotein translocase SecG subunit; Region: SecG; pfam03840 884204006616 triosephosphate isomerase; Provisional; Region: PRK14567 884204006617 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 884204006618 substrate binding site [chemical binding]; other site 884204006619 dimer interface [polypeptide binding]; other site 884204006620 catalytic triad [active] 884204006621 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 884204006622 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 884204006623 NAD(P) binding site [chemical binding]; other site 884204006624 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 884204006625 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 884204006626 RNase E interface [polypeptide binding]; other site 884204006627 trimer interface [polypeptide binding]; other site 884204006628 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 884204006629 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 884204006630 RNase E interface [polypeptide binding]; other site 884204006631 trimer interface [polypeptide binding]; other site 884204006632 active site 884204006633 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 884204006634 putative nucleic acid binding region [nucleotide binding]; other site 884204006635 G-X-X-G motif; other site 884204006636 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 884204006637 RNA binding site [nucleotide binding]; other site 884204006638 domain interface; other site 884204006639 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 884204006640 16S/18S rRNA binding site [nucleotide binding]; other site 884204006641 S13e-L30e interaction site [polypeptide binding]; other site 884204006642 25S rRNA binding site [nucleotide binding]; other site 884204006643 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 884204006644 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 884204006645 putative ligand binding site [chemical binding]; other site 884204006646 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 884204006647 active site clefts [active] 884204006648 zinc binding site [ion binding]; other site 884204006649 dimer interface [polypeptide binding]; other site 884204006650 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 884204006651 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 884204006652 Sulfate transporter family; Region: Sulfate_transp; pfam00916 884204006653 2-isopropylmalate synthase; Validated; Region: PRK00915 884204006654 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 884204006655 active site 884204006656 catalytic residues [active] 884204006657 metal binding site [ion binding]; metal-binding site 884204006658 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 884204006659 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 884204006660 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 884204006661 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 884204006662 ketol-acid reductoisomerase; Provisional; Region: PRK05479 884204006663 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 884204006664 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 884204006665 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 884204006666 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 884204006667 putative valine binding site [chemical binding]; other site 884204006668 dimer interface [polypeptide binding]; other site 884204006669 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 884204006670 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 884204006671 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204006672 PYR/PP interface [polypeptide binding]; other site 884204006673 dimer interface [polypeptide binding]; other site 884204006674 TPP binding site [chemical binding]; other site 884204006675 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204006676 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 884204006677 TPP-binding site [chemical binding]; other site 884204006678 dimer interface [polypeptide binding]; other site 884204006679 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204006680 RNA polymerase factor sigma-70; Validated; Region: PRK09047 884204006681 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 884204006682 DNA binding residues [nucleotide binding] 884204006683 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 884204006684 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 884204006685 RDD family; Region: RDD; pfam06271 884204006686 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 884204006687 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 884204006688 putative active site [active] 884204006689 putative metal binding site [ion binding]; other site 884204006690 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204006691 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 884204006692 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 884204006693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204006694 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204006695 Bacterial transcriptional repressor; Region: TetR; pfam13972 884204006696 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 884204006697 glucose-1-dehydrogenase; Provisional; Region: PRK06947 884204006698 classical (c) SDRs; Region: SDR_c; cd05233 884204006699 NAD(P) binding site [chemical binding]; other site 884204006700 active site 884204006701 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 884204006702 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 884204006703 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 884204006704 citrate-proton symporter; Provisional; Region: PRK15075 884204006705 amidase; Provisional; Region: PRK07042 884204006706 Amidase; Region: Amidase; cl11426 884204006707 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 884204006708 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 884204006709 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 884204006710 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 884204006711 apolar tunnel; other site 884204006712 heme binding site [chemical binding]; other site 884204006713 dimerization interface [polypeptide binding]; other site 884204006714 FtsX-like permease family; Region: FtsX; pfam02687 884204006715 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 884204006716 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 884204006717 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 884204006718 Domain of unknown function (DUF333); Region: DUF333; pfam03891 884204006719 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 884204006720 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 884204006721 active site 884204006722 phosphorylation site [posttranslational modification] 884204006723 intermolecular recognition site; other site 884204006724 dimerization interface [polypeptide binding]; other site 884204006725 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 884204006726 DNA binding site [nucleotide binding] 884204006727 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 884204006728 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 884204006729 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 884204006730 Ligand Binding Site [chemical binding]; other site 884204006731 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 884204006732 GAF domain; Region: GAF_3; pfam13492 884204006733 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 884204006734 dimer interface [polypeptide binding]; other site 884204006735 phosphorylation site [posttranslational modification] 884204006736 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 884204006737 ATP binding site [chemical binding]; other site 884204006738 Mg2+ binding site [ion binding]; other site 884204006739 G-X-G motif; other site 884204006740 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 884204006741 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 884204006742 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 884204006743 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 884204006744 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 884204006745 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 884204006746 NADP binding site [chemical binding]; other site 884204006747 dimer interface [polypeptide binding]; other site 884204006748 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 884204006749 active site 884204006750 dimer interfaces [polypeptide binding]; other site 884204006751 catalytic residues [active] 884204006752 short chain dehydrogenase; Provisional; Region: PRK08339 884204006753 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 884204006754 putative NAD(P) binding site [chemical binding]; other site 884204006755 putative active site [active] 884204006756 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204006757 active site 884204006758 hypothetical protein; Validated; Region: PRK00110 884204006759 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 884204006760 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 884204006761 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 884204006762 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 884204006763 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 884204006764 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 884204006765 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 884204006766 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 884204006767 active site 884204006768 (T/H)XGH motif; other site 884204006769 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 884204006770 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 884204006771 Maf-like protein; Region: Maf; pfam02545 884204006772 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 884204006773 active site 884204006774 dimer interface [polypeptide binding]; other site 884204006775 ribonuclease G; Provisional; Region: PRK11712 884204006776 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 884204006777 homodimer interface [polypeptide binding]; other site 884204006778 oligonucleotide binding site [chemical binding]; other site 884204006779 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 884204006780 Pectinacetylesterase; Region: PAE; pfam03283 884204006781 phospholipase C accessory protein PlcR; Region: plc_access_R; TIGR03398 884204006782 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 884204006783 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 884204006784 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204006785 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 884204006786 DNA binding residues [nucleotide binding] 884204006787 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 884204006788 Uncharacterized conserved protein [Function unknown]; Region: COG2128 884204006789 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204006790 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 884204006791 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 884204006792 putative metal binding site; other site 884204006793 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 884204006794 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 884204006795 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 884204006796 putative active site [active] 884204006797 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204006798 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 884204006799 putative ADP-binding pocket [chemical binding]; other site 884204006800 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 884204006801 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 884204006802 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 884204006803 putative active site [active] 884204006804 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 884204006805 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 884204006806 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 884204006807 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 884204006808 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 884204006809 Walker A/P-loop; other site 884204006810 ATP binding site [chemical binding]; other site 884204006811 Q-loop/lid; other site 884204006812 ABC transporter signature motif; other site 884204006813 Walker B; other site 884204006814 D-loop; other site 884204006815 H-loop/switch region; other site 884204006816 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 884204006817 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 884204006818 putative active site [active] 884204006819 putative PHP Thumb interface [polypeptide binding]; other site 884204006820 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 884204006821 generic binding surface II; other site 884204006822 generic binding surface I; other site 884204006823 rhodanese superfamily protein; Provisional; Region: PRK05320 884204006824 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 884204006825 active site residue [active] 884204006826 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 884204006827 active site 884204006828 HIGH motif; other site 884204006829 nucleotide binding site [chemical binding]; other site 884204006830 KMSKS motif; other site 884204006831 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 884204006832 DEAD-like helicases superfamily; Region: DEXDc; smart00487 884204006833 ATP binding site [chemical binding]; other site 884204006834 Mg++ binding site [ion binding]; other site 884204006835 motif III; other site 884204006836 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 884204006837 nucleotide binding region [chemical binding]; other site 884204006838 ATP-binding site [chemical binding]; other site 884204006839 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 884204006840 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 884204006841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204006842 ATP-grasp domain; Region: ATP-grasp; pfam02222 884204006843 META domain; Region: META; pfam03724 884204006844 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 884204006845 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 884204006846 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 884204006847 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 884204006848 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 884204006849 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 884204006850 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 884204006851 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 884204006852 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204006853 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204006854 ferredoxin; Provisional; Region: PRK06991 884204006855 Putative Fe-S cluster; Region: FeS; pfam04060 884204006856 4Fe-4S binding domain; Region: Fer4; pfam00037 884204006857 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 884204006858 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 884204006859 minor groove reading motif; other site 884204006860 helix-hairpin-helix signature motif; other site 884204006861 substrate binding pocket [chemical binding]; other site 884204006862 active site 884204006863 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 884204006864 EamA-like transporter family; Region: EamA; pfam00892 884204006865 EamA-like transporter family; Region: EamA; cl17759 884204006866 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 884204006867 Cytochrome c; Region: Cytochrom_C; cl11414 884204006868 Cytochrome c553 [Energy production and conversion]; Region: COG2863 884204006869 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 884204006870 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 884204006871 Walker A motif; other site 884204006872 ATP binding site [chemical binding]; other site 884204006873 Walker B motif; other site 884204006874 arginine finger; other site 884204006875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 884204006876 Benzoate membrane transport protein; Region: BenE; pfam03594 884204006877 benzoate transporter; Region: benE; TIGR00843 884204006878 transaldolase-like protein; Provisional; Region: PTZ00411 884204006879 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 884204006880 active site 884204006881 dimer interface [polypeptide binding]; other site 884204006882 catalytic residue [active] 884204006883 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 884204006884 dimer interface [polypeptide binding]; other site 884204006885 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204006886 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 884204006887 Na binding site [ion binding]; other site 884204006888 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 884204006889 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 884204006890 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 884204006891 putative active site [active] 884204006892 Chorismate lyase; Region: Chor_lyase; cl01230 884204006893 heat shock protein 90; Provisional; Region: PRK05218 884204006894 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 884204006895 ATP binding site [chemical binding]; other site 884204006896 Mg2+ binding site [ion binding]; other site 884204006897 G-X-G motif; other site 884204006898 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 884204006899 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204006900 DNA-binding site [nucleotide binding]; DNA binding site 884204006901 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 884204006902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204006903 homodimer interface [polypeptide binding]; other site 884204006904 catalytic residue [active] 884204006905 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 884204006906 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 884204006907 EamA-like transporter family; Region: EamA; pfam00892 884204006908 EamA-like transporter family; Region: EamA; pfam00892 884204006909 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 884204006910 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 884204006911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204006912 homodimer interface [polypeptide binding]; other site 884204006913 catalytic residue [active] 884204006914 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 884204006915 homotrimer interaction site [polypeptide binding]; other site 884204006916 putative active site [active] 884204006917 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 884204006918 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 884204006919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 884204006920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204006921 metal binding site [ion binding]; metal-binding site 884204006922 active site 884204006923 I-site; other site 884204006924 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 884204006925 Chromate transporter; Region: Chromate_transp; pfam02417 884204006926 Chromate transporter; Region: Chromate_transp; pfam02417 884204006927 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 884204006928 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 884204006929 active site 884204006930 Zn binding site [ion binding]; other site 884204006931 allantoate amidohydrolase; Reviewed; Region: PRK12893 884204006932 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 884204006933 active site 884204006934 metal binding site [ion binding]; metal-binding site 884204006935 dimer interface [polypeptide binding]; other site 884204006936 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204006937 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204006938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204006939 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 884204006940 dimerization interface [polypeptide binding]; other site 884204006941 Predicted membrane protein [Function unknown]; Region: COG4125 884204006942 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 884204006943 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 884204006944 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204006945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204006946 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 884204006947 dimerization interface [polypeptide binding]; other site 884204006948 Predicted integral membrane protein [Function unknown]; Region: COG5615 884204006949 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 884204006950 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 884204006951 CAP-like domain; other site 884204006952 active site 884204006953 primary dimer interface [polypeptide binding]; other site 884204006954 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 884204006955 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 884204006956 ATP binding site [chemical binding]; other site 884204006957 Mg2+ binding site [ion binding]; other site 884204006958 G-X-G motif; other site 884204006959 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 884204006960 anchoring element; other site 884204006961 dimer interface [polypeptide binding]; other site 884204006962 ATP binding site [chemical binding]; other site 884204006963 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 884204006964 active site 884204006965 metal binding site [ion binding]; metal-binding site 884204006966 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 884204006967 ABC transporter ATPase component; Reviewed; Region: PRK11147 884204006968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204006969 Walker A/P-loop; other site 884204006970 ATP binding site [chemical binding]; other site 884204006971 Q-loop/lid; other site 884204006972 ABC transporter signature motif; other site 884204006973 Walker B; other site 884204006974 D-loop; other site 884204006975 H-loop/switch region; other site 884204006976 ABC transporter; Region: ABC_tran_2; pfam12848 884204006977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 884204006978 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 884204006979 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 884204006980 Rubredoxin; Region: Rubredoxin; pfam00301 884204006981 iron binding site [ion binding]; other site 884204006982 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 884204006983 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204006984 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204006985 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 884204006986 rRNA binding site [nucleotide binding]; other site 884204006987 predicted 30S ribosome binding site; other site 884204006988 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 884204006989 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 884204006990 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 884204006991 haemagglutination activity domain; Region: Haemagg_act; pfam05860 884204006992 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 884204006993 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 884204006994 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 884204006995 The BURPS668_1122 family of deaminases; Region: Toxin-deaminase; pfam14424 884204006996 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 884204006997 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 884204006998 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 884204006999 ecotin; Provisional; Region: PRK03719 884204007000 secondary substrate binding site; other site 884204007001 primary substrate binding site; other site 884204007002 inhibition loop; other site 884204007003 dimerization interface [polypeptide binding]; other site 884204007004 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 884204007005 substrate binding site [chemical binding]; other site 884204007006 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 884204007007 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204007008 putative substrate translocation pore; other site 884204007009 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; cl17904 884204007010 Predicted ATPase [General function prediction only]; Region: COG3911 884204007011 AAA domain; Region: AAA_28; pfam13521 884204007012 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 884204007013 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 884204007014 active site 884204007015 homotetramer interface [polypeptide binding]; other site 884204007016 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 884204007017 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 884204007018 Walker A/P-loop; other site 884204007019 ATP binding site [chemical binding]; other site 884204007020 Q-loop/lid; other site 884204007021 ABC transporter signature motif; other site 884204007022 Walker B; other site 884204007023 D-loop; other site 884204007024 H-loop/switch region; other site 884204007025 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 884204007026 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 884204007027 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 884204007028 dimer interface [polypeptide binding]; other site 884204007029 conserved gate region; other site 884204007030 putative PBP binding loops; other site 884204007031 ABC-ATPase subunit interface; other site 884204007032 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 884204007033 dimer interface [polypeptide binding]; other site 884204007034 conserved gate region; other site 884204007035 putative PBP binding loops; other site 884204007036 ABC-ATPase subunit interface; other site 884204007037 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 884204007038 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 884204007039 dimer interface [polypeptide binding]; other site 884204007040 phosphorylation site [posttranslational modification] 884204007041 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 884204007042 ATP binding site [chemical binding]; other site 884204007043 Mg2+ binding site [ion binding]; other site 884204007044 G-X-G motif; other site 884204007045 osmolarity response regulator; Provisional; Region: ompR; PRK09468 884204007046 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 884204007047 active site 884204007048 phosphorylation site [posttranslational modification] 884204007049 intermolecular recognition site; other site 884204007050 dimerization interface [polypeptide binding]; other site 884204007051 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 884204007052 DNA binding site [nucleotide binding] 884204007053 Pirin-related protein [General function prediction only]; Region: COG1741 884204007054 Pirin; Region: Pirin; pfam02678 884204007055 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 884204007056 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 884204007057 substrate binding pocket [chemical binding]; other site 884204007058 membrane-bound complex binding site; other site 884204007059 hinge residues; other site 884204007060 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 884204007061 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 884204007062 dimer interface [polypeptide binding]; other site 884204007063 conserved gate region; other site 884204007064 putative PBP binding loops; other site 884204007065 ABC-ATPase subunit interface; other site 884204007066 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 884204007067 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 884204007068 dimer interface [polypeptide binding]; other site 884204007069 conserved gate region; other site 884204007070 putative PBP binding loops; other site 884204007071 ABC-ATPase subunit interface; other site 884204007072 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 884204007073 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 884204007074 Walker A/P-loop; other site 884204007075 ATP binding site [chemical binding]; other site 884204007076 Q-loop/lid; other site 884204007077 ABC transporter signature motif; other site 884204007078 Walker B; other site 884204007079 D-loop; other site 884204007080 H-loop/switch region; other site 884204007081 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204007082 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 884204007083 trimer interface [polypeptide binding]; other site 884204007084 eyelet of channel; other site 884204007085 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 884204007086 Nitrogen regulatory protein P-II; Region: P-II; smart00938 884204007087 NAD synthetase; Provisional; Region: PRK13981 884204007088 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 884204007089 multimer interface [polypeptide binding]; other site 884204007090 active site 884204007091 catalytic triad [active] 884204007092 protein interface 1 [polypeptide binding]; other site 884204007093 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 884204007094 homodimer interface [polypeptide binding]; other site 884204007095 NAD binding pocket [chemical binding]; other site 884204007096 ATP binding pocket [chemical binding]; other site 884204007097 Mg binding site [ion binding]; other site 884204007098 active-site loop [active] 884204007099 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 884204007100 Protein of unknown function, DUF482; Region: DUF482; pfam04339 884204007101 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 884204007102 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 884204007103 dimer interface [polypeptide binding]; other site 884204007104 substrate binding site [chemical binding]; other site 884204007105 metal binding sites [ion binding]; metal-binding site 884204007106 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 884204007107 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 884204007108 NAD(P) binding site [chemical binding]; other site 884204007109 catalytic residues [active] 884204007110 catalytic residues [active] 884204007111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204007112 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 884204007113 NAD(P) binding site [chemical binding]; other site 884204007114 active site 884204007115 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 884204007116 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 884204007117 putative substrate translocation pore; other site 884204007118 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 884204007119 HemY protein N-terminus; Region: HemY_N; pfam07219 884204007120 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 884204007121 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 884204007122 active site 884204007123 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 884204007124 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 884204007125 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; cl17708 884204007126 domain interfaces; other site 884204007127 active site 884204007128 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 884204007129 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 884204007130 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204007131 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 884204007132 S-adenosylmethionine binding site [chemical binding]; other site 884204007133 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 884204007134 sequence-specific DNA binding site [nucleotide binding]; other site 884204007135 salt bridge; other site 884204007136 Spore Coat Protein U domain; Region: SCPU; pfam05229 884204007137 Spore Coat Protein U domain; Region: SCPU; pfam05229 884204007138 Uncharacterized secreted protein [Function unknown]; Region: COG5430 884204007139 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 884204007140 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 884204007141 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 884204007142 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 884204007143 PapC C-terminal domain; Region: PapC_C; pfam13953 884204007144 argininosuccinate lyase; Provisional; Region: PRK00855 884204007145 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 884204007146 active sites [active] 884204007147 tetramer interface [polypeptide binding]; other site 884204007148 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 884204007149 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 884204007150 motif II; other site 884204007151 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 884204007152 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 884204007153 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 884204007154 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 884204007155 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 884204007156 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204007157 catalytic residue [active] 884204007158 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 884204007159 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 884204007160 trimer interface [polypeptide binding]; other site 884204007161 active site 884204007162 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 884204007163 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 884204007164 E-class dimer interface [polypeptide binding]; other site 884204007165 P-class dimer interface [polypeptide binding]; other site 884204007166 active site 884204007167 Cu2+ binding site [ion binding]; other site 884204007168 Zn2+ binding site [ion binding]; other site 884204007169 Domain of unknown function DUF59; Region: DUF59; pfam01883 884204007170 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 884204007171 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 884204007172 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204007173 ligand binding site [chemical binding]; other site 884204007174 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 884204007175 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 884204007176 active site 884204007177 HIGH motif; other site 884204007178 KMSKS motif; other site 884204007179 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 884204007180 tRNA binding surface [nucleotide binding]; other site 884204007181 anticodon binding site; other site 884204007182 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 884204007183 dimer interface [polypeptide binding]; other site 884204007184 putative tRNA-binding site [nucleotide binding]; other site 884204007185 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 884204007186 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 884204007187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 884204007188 Family of unknown function (DUF490); Region: DUF490; pfam04357 884204007189 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 884204007190 Surface antigen; Region: Bac_surface_Ag; pfam01103 884204007191 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 884204007192 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 884204007193 pantoate--beta-alanine ligase; Region: panC; TIGR00018 884204007194 Pantoate-beta-alanine ligase; Region: PanC; cd00560 884204007195 active site 884204007196 ATP-binding site [chemical binding]; other site 884204007197 pantoate-binding site; other site 884204007198 HXXH motif; other site 884204007199 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 884204007200 tetramerization interface [polypeptide binding]; other site 884204007201 active site 884204007202 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 884204007203 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 884204007204 P-loop; other site 884204007205 Magnesium ion binding site [ion binding]; other site 884204007206 DoxX; Region: DoxX; pfam07681 884204007207 cobyric acid synthase; Provisional; Region: PRK00784 884204007208 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 884204007209 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 884204007210 catalytic triad [active] 884204007211 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 884204007212 homotrimer interface [polypeptide binding]; other site 884204007213 Walker A motif; other site 884204007214 GTP binding site [chemical binding]; other site 884204007215 Walker B motif; other site 884204007216 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 884204007217 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 884204007218 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 884204007219 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204007220 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 884204007221 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 884204007222 cobalamin binding residues [chemical binding]; other site 884204007223 putative BtuC binding residues; other site 884204007224 dimer interface [polypeptide binding]; other site 884204007225 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 884204007226 catalytic core [active] 884204007227 cobalamin synthase; Reviewed; Region: cobS; PRK00235 884204007228 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 884204007229 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 884204007230 putative dimer interface [polypeptide binding]; other site 884204007231 active site pocket [active] 884204007232 putative cataytic base [active] 884204007233 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 884204007234 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 884204007235 Walker A/P-loop; other site 884204007236 ATP binding site [chemical binding]; other site 884204007237 Q-loop/lid; other site 884204007238 ABC transporter signature motif; other site 884204007239 Walker B; other site 884204007240 D-loop; other site 884204007241 H-loop/switch region; other site 884204007242 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 884204007243 ABC-ATPase subunit interface; other site 884204007244 dimer interface [polypeptide binding]; other site 884204007245 putative PBP binding regions; other site 884204007246 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 884204007247 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 884204007248 N-terminal plug; other site 884204007249 ligand-binding site [chemical binding]; other site 884204007250 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 884204007251 Cell division protein ZapA; Region: ZapA; pfam05164 884204007252 Uncharacterized conserved protein [Function unknown]; Region: COG2947 884204007253 Protein of unknown function (DUF541); Region: SIMPL; cl01077 884204007254 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 884204007255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204007256 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 884204007257 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 884204007258 putative dimerization interface [polypeptide binding]; other site 884204007259 putative substrate binding pocket [chemical binding]; other site 884204007260 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 884204007261 Cytochrome c; Region: Cytochrom_C; cl11414 884204007262 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 884204007263 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 884204007264 multifunctional aminopeptidase A; Provisional; Region: PRK00913 884204007265 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 884204007266 interface (dimer of trimers) [polypeptide binding]; other site 884204007267 Substrate-binding/catalytic site; other site 884204007268 Zn-binding sites [ion binding]; other site 884204007269 Predicted permeases [General function prediction only]; Region: COG0795 884204007270 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 884204007271 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 884204007272 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 884204007273 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 884204007274 putative active site [active] 884204007275 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 884204007276 active site 884204007277 SAM binding site [chemical binding]; other site 884204007278 homodimer interface [polypeptide binding]; other site 884204007279 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 884204007280 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 884204007281 CysD dimerization site [polypeptide binding]; other site 884204007282 G1 box; other site 884204007283 putative GEF interaction site [polypeptide binding]; other site 884204007284 GTP/Mg2+ binding site [chemical binding]; other site 884204007285 Switch I region; other site 884204007286 G2 box; other site 884204007287 G3 box; other site 884204007288 Switch II region; other site 884204007289 G4 box; other site 884204007290 G5 box; other site 884204007291 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 884204007292 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 884204007293 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 884204007294 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 884204007295 Active Sites [active] 884204007296 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 884204007297 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 884204007298 Active Sites [active] 884204007299 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 884204007300 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 884204007301 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 884204007302 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 884204007303 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 884204007304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204007305 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 884204007306 substrate binding site [chemical binding]; other site 884204007307 dimerization interface [polypeptide binding]; other site 884204007308 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 884204007309 Replication protein C (RepC); Region: RepC; pfam06504 884204007310 Transposase; Region: HTH_Tnp_1; pfam01527 884204007311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 884204007312 HTH-like domain; Region: HTH_21; pfam13276 884204007313 Integrase core domain; Region: rve; pfam00665 884204007314 Integrase core domain; Region: rve_3; pfam13683 884204007315 Predicted transcriptional regulator [Transcription]; Region: COG2378 884204007316 HTH domain; Region: HTH_11; pfam08279 884204007317 WYL domain; Region: WYL; pfam13280 884204007318 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204007319 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 884204007320 non-specific DNA binding site [nucleotide binding]; other site 884204007321 salt bridge; other site 884204007322 sequence-specific DNA binding site [nucleotide binding]; other site 884204007323 Cupin domain; Region: Cupin_2; pfam07883 884204007324 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 884204007325 intersubunit interface [polypeptide binding]; other site 884204007326 active site 884204007327 Zn2+ binding site [ion binding]; other site 884204007328 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 884204007329 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 884204007330 inhibitor site; inhibition site 884204007331 active site 884204007332 dimer interface [polypeptide binding]; other site 884204007333 catalytic residue [active] 884204007334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 884204007335 MOSC domain; Region: MOSC; pfam03473 884204007336 3-alpha domain; Region: 3-alpha; pfam03475 884204007337 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204007338 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204007339 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204007340 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 884204007341 dimerization interface [polypeptide binding]; other site 884204007342 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204007343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204007344 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 884204007345 dimerization interface [polypeptide binding]; other site 884204007346 CopC domain; Region: CopC; pfam04234 884204007347 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 884204007348 RNA binding surface [nucleotide binding]; other site 884204007349 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 884204007350 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 884204007351 active site 884204007352 uracil binding [chemical binding]; other site 884204007353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204007354 NAD(P) binding site [chemical binding]; other site 884204007355 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 884204007356 active site 884204007357 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 884204007358 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 884204007359 catalytic loop [active] 884204007360 iron binding site [ion binding]; other site 884204007361 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 884204007362 FAD binding pocket [chemical binding]; other site 884204007363 FAD binding motif [chemical binding]; other site 884204007364 phosphate binding motif [ion binding]; other site 884204007365 beta-alpha-beta structure motif; other site 884204007366 NAD binding pocket [chemical binding]; other site 884204007367 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 884204007368 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 884204007369 inhibitor-cofactor binding pocket; inhibition site 884204007370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204007371 catalytic residue [active] 884204007372 putative acetyltransferase; Provisional; Region: PRK03624 884204007373 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 884204007374 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 884204007375 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 884204007376 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 884204007377 Walker A/P-loop; other site 884204007378 ATP binding site [chemical binding]; other site 884204007379 Q-loop/lid; other site 884204007380 ABC transporter signature motif; other site 884204007381 Walker B; other site 884204007382 D-loop; other site 884204007383 H-loop/switch region; other site 884204007384 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 884204007385 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 884204007386 Walker A/P-loop; other site 884204007387 ATP binding site [chemical binding]; other site 884204007388 Q-loop/lid; other site 884204007389 ABC transporter signature motif; other site 884204007390 Walker B; other site 884204007391 D-loop; other site 884204007392 H-loop/switch region; other site 884204007393 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 884204007394 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 884204007395 TM-ABC transporter signature motif; other site 884204007396 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204007397 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 884204007398 TM-ABC transporter signature motif; other site 884204007399 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 884204007400 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 884204007401 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 884204007402 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 884204007403 hypothetical protein; Reviewed; Region: PRK00024 884204007404 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 884204007405 MPN+ (JAMM) motif; other site 884204007406 Zinc-binding site [ion binding]; other site 884204007407 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 884204007408 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 884204007409 L-aspartate oxidase; Provisional; Region: PRK09077 884204007410 L-aspartate oxidase; Provisional; Region: PRK06175 884204007411 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 884204007412 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 884204007413 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 884204007414 dimerization interface [polypeptide binding]; other site 884204007415 active site 884204007416 quinolinate synthetase; Provisional; Region: PRK09375 884204007417 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 884204007418 Fatty acid desaturase; Region: FA_desaturase; pfam00487 884204007419 Di-iron ligands [ion binding]; other site 884204007420 Transposase; Region: DDE_Tnp_ISL3; pfam01610 884204007421 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 884204007422 Mechanosensitive ion channel; Region: MS_channel; pfam00924 884204007423 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 884204007424 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 884204007425 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 884204007426 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 884204007427 active site 884204007428 substrate binding site [chemical binding]; other site 884204007429 cosubstrate binding site; other site 884204007430 catalytic site [active] 884204007431 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 884204007432 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 884204007433 active site 884204007434 Riboflavin kinase; Region: Flavokinase; smart00904 884204007435 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 884204007436 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 884204007437 active site 884204007438 HIGH motif; other site 884204007439 nucleotide binding site [chemical binding]; other site 884204007440 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 884204007441 active site 884204007442 KMSKS motif; other site 884204007443 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 884204007444 tRNA binding surface [nucleotide binding]; other site 884204007445 anticodon binding site; other site 884204007446 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 884204007447 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 884204007448 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 884204007449 Flavoprotein; Region: Flavoprotein; pfam02441 884204007450 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 884204007451 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 884204007452 trimer interface [polypeptide binding]; other site 884204007453 active site 884204007454 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 884204007455 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 884204007456 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 884204007457 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 884204007458 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 884204007459 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 884204007460 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 884204007461 Clp amino terminal domain; Region: Clp_N; pfam02861 884204007462 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 884204007463 Walker A motif; other site 884204007464 ATP binding site [chemical binding]; other site 884204007465 Walker B motif; other site 884204007466 arginine finger; other site 884204007467 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 884204007468 Walker A motif; other site 884204007469 ATP binding site [chemical binding]; other site 884204007470 Walker B motif; other site 884204007471 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 884204007472 Uncharacterized conserved protein [Function unknown]; Region: COG2127 884204007473 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 884204007474 DNA-binding site [nucleotide binding]; DNA binding site 884204007475 RNA-binding motif; other site 884204007476 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 884204007477 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 884204007478 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 884204007479 isocitrate dehydrogenase; Validated; Region: PRK07362 884204007480 isocitrate dehydrogenase; Reviewed; Region: PRK07006 884204007481 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 884204007482 pseudouridine synthase; Region: TIGR00093 884204007483 active site 884204007484 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 884204007485 elongation factor G; Reviewed; Region: PRK00007 884204007486 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 884204007487 G1 box; other site 884204007488 putative GEF interaction site [polypeptide binding]; other site 884204007489 GTP/Mg2+ binding site [chemical binding]; other site 884204007490 Switch I region; other site 884204007491 G2 box; other site 884204007492 G3 box; other site 884204007493 Switch II region; other site 884204007494 G4 box; other site 884204007495 G5 box; other site 884204007496 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 884204007497 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 884204007498 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 884204007499 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 884204007500 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 884204007501 active site 884204007502 catalytic tetrad [active] 884204007503 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 884204007504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204007505 DNA-binding site [nucleotide binding]; DNA binding site 884204007506 UTRA domain; Region: UTRA; pfam07702 884204007507 Helix-turn-helix domain; Region: HTH_17; pfam12728 884204007508 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 884204007509 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 884204007510 dimer interface [polypeptide binding]; other site 884204007511 active site 884204007512 oxalacetate/citrate binding site [chemical binding]; other site 884204007513 citrylCoA binding site [chemical binding]; other site 884204007514 coenzyme A binding site [chemical binding]; other site 884204007515 catalytic triad [active] 884204007516 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 884204007517 putative transporter; Provisional; Region: PRK10504 884204007518 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 884204007519 putative substrate translocation pore; other site 884204007520 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 884204007521 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 884204007522 S-adenosylmethionine binding site [chemical binding]; other site 884204007523 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 884204007524 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 884204007525 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 884204007526 Predicted membrane protein [Function unknown]; Region: COG4539 884204007527 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 884204007528 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 884204007529 ligand binding site [chemical binding]; other site 884204007530 flexible hinge region; other site 884204007531 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 884204007532 putative switch regulator; other site 884204007533 non-specific DNA interactions [nucleotide binding]; other site 884204007534 DNA binding site [nucleotide binding] 884204007535 sequence specific DNA binding site [nucleotide binding]; other site 884204007536 putative cAMP binding site [chemical binding]; other site 884204007537 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 884204007538 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 884204007539 Chromate transporter; Region: Chromate_transp; pfam02417 884204007540 superoxide dismutase; Provisional; Region: PRK10543 884204007541 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 884204007542 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 884204007543 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 884204007544 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 884204007545 generic binding surface II; other site 884204007546 generic binding surface I; other site 884204007547 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 884204007548 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 884204007549 Uncharacterized conserved protein [Function unknown]; Region: COG2835 884204007550 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 884204007551 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 884204007552 Ligand binding site; other site 884204007553 oligomer interface; other site 884204007554 adenylate kinase; Reviewed; Region: adk; PRK00279 884204007555 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 884204007556 AMP-binding site [chemical binding]; other site 884204007557 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 884204007558 Transposase domain (DUF772); Region: DUF772; pfam05598 884204007559 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 884204007560 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 884204007561 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 884204007562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204007563 NAD(P) binding site [chemical binding]; other site 884204007564 active site 884204007565 Uncharacterized conserved protein [Function unknown]; Region: COG2912 884204007566 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 884204007567 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 884204007568 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 884204007569 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 884204007570 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 884204007571 ornithine carbamoyltransferase; Provisional; Region: PRK00779 884204007572 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 884204007573 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 884204007574 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 884204007575 FAD binding domain; Region: FAD_binding_4; pfam01565 884204007576 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 884204007577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 884204007578 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 884204007579 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 884204007580 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 884204007581 putative deacylase active site [active] 884204007582 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 884204007583 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204007584 acyl-activating enzyme (AAE) consensus motif; other site 884204007585 AMP binding site [chemical binding]; other site 884204007586 active site 884204007587 CoA binding site [chemical binding]; other site 884204007588 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 884204007589 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 884204007590 active site 884204007591 Int/Topo IB signature motif; other site 884204007592 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 884204007593 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 884204007594 DNA binding site [nucleotide binding] 884204007595 active site 884204007596 epoxyqueuosine reductase; Region: TIGR00276 884204007597 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 884204007598 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 884204007599 AMIN domain; Region: AMIN; pfam11741 884204007600 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 884204007601 active site 884204007602 metal binding site [ion binding]; metal-binding site 884204007603 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 884204007604 EamA-like transporter family; Region: EamA; pfam00892 884204007605 Pirin-related protein [General function prediction only]; Region: COG1741 884204007606 Pirin; Region: Pirin; pfam02678 884204007607 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 884204007608 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 884204007609 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 884204007610 catalytic residues [active] 884204007611 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 884204007612 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 884204007613 putative ATP binding site [chemical binding]; other site 884204007614 putative substrate interface [chemical binding]; other site 884204007615 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 884204007616 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 884204007617 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 884204007618 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 884204007619 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 884204007620 S-adenosylmethionine binding site [chemical binding]; other site 884204007621 Protein of unknown function DUF72; Region: DUF72; pfam01904 884204007622 methionine sulfoxide reductase A; Provisional; Region: PRK14054 884204007623 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 884204007624 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204007625 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 884204007626 putative DNA binding site [nucleotide binding]; other site 884204007627 putative Zn2+ binding site [ion binding]; other site 884204007628 AsnC family; Region: AsnC_trans_reg; pfam01037 884204007629 arylformamidase; Region: trp_arylform; TIGR03035 884204007630 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 884204007631 kynureninase; Region: kynureninase; TIGR01814 884204007632 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204007633 catalytic residue [active] 884204007634 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 884204007635 benzoate transport; Region: 2A0115; TIGR00895 884204007636 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 884204007637 putative substrate translocation pore; other site 884204007638 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 884204007639 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 884204007640 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 884204007641 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 884204007642 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 884204007643 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 884204007644 NAD(P) binding site [chemical binding]; other site 884204007645 catalytic residues [active] 884204007646 benzoylformate decarboxylase; Reviewed; Region: PRK07092 884204007647 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204007648 PYR/PP interface [polypeptide binding]; other site 884204007649 dimer interface [polypeptide binding]; other site 884204007650 TPP binding site [chemical binding]; other site 884204007651 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204007652 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 884204007653 TPP-binding site [chemical binding]; other site 884204007654 dimer interface [polypeptide binding]; other site 884204007655 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204007656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204007657 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 884204007658 dimerization interface [polypeptide binding]; other site 884204007659 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 884204007660 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 884204007661 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 884204007662 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 884204007663 N- and C-terminal domain interface [polypeptide binding]; other site 884204007664 D-xylulose kinase; Region: XylB; TIGR01312 884204007665 active site 884204007666 MgATP binding site [chemical binding]; other site 884204007667 catalytic site [active] 884204007668 metal binding site [ion binding]; metal-binding site 884204007669 xylulose binding site [chemical binding]; other site 884204007670 homodimer interface [polypeptide binding]; other site 884204007671 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 884204007672 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 884204007673 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 884204007674 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 884204007675 putative substrate translocation pore; other site 884204007676 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 884204007677 Beta-lactamase; Region: Beta-lactamase; pfam00144 884204007678 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204007679 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204007680 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 884204007681 putative effector binding pocket; other site 884204007682 putative dimerization interface [polypeptide binding]; other site 884204007683 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 884204007684 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 884204007685 Walker A/P-loop; other site 884204007686 ATP binding site [chemical binding]; other site 884204007687 Q-loop/lid; other site 884204007688 ABC transporter signature motif; other site 884204007689 Walker B; other site 884204007690 D-loop; other site 884204007691 H-loop/switch region; other site 884204007692 TOBE domain; Region: TOBE; pfam03459 884204007693 TOBE domain; Region: TOBE_2; pfam08402 884204007694 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 884204007695 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 884204007696 active site 884204007697 motif I; other site 884204007698 motif II; other site 884204007699 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 884204007700 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 884204007701 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 884204007702 dimer interface [polypeptide binding]; other site 884204007703 conserved gate region; other site 884204007704 putative PBP binding loops; other site 884204007705 ABC-ATPase subunit interface; other site 884204007706 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 884204007707 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 884204007708 dimer interface [polypeptide binding]; other site 884204007709 conserved gate region; other site 884204007710 putative PBP binding loops; other site 884204007711 ABC-ATPase subunit interface; other site 884204007712 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 884204007713 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 884204007714 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 884204007715 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 884204007716 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 884204007717 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 884204007718 substrate binding site [chemical binding]; other site 884204007719 ATP binding site [chemical binding]; other site 884204007720 sorbitol dehydrogenase; Provisional; Region: PRK07067 884204007721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204007722 NAD(P) binding site [chemical binding]; other site 884204007723 active site 884204007724 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 884204007725 metal binding site 2 [ion binding]; metal-binding site 884204007726 putative DNA binding helix; other site 884204007727 metal binding site 1 [ion binding]; metal-binding site 884204007728 dimer interface [polypeptide binding]; other site 884204007729 structural Zn2+ binding site [ion binding]; other site 884204007730 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 884204007731 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 884204007732 metal binding site [ion binding]; metal-binding site 884204007733 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 884204007734 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 884204007735 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 884204007736 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 884204007737 dimer interface [polypeptide binding]; other site 884204007738 putative PBP binding regions; other site 884204007739 ABC-ATPase subunit interface; other site 884204007740 S-formylglutathione hydrolase; Region: PLN02442 884204007741 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 884204007742 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 884204007743 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 884204007744 substrate binding site [chemical binding]; other site 884204007745 catalytic Zn binding site [ion binding]; other site 884204007746 NAD binding site [chemical binding]; other site 884204007747 structural Zn binding site [ion binding]; other site 884204007748 dimer interface [polypeptide binding]; other site 884204007749 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 884204007750 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 884204007751 conserved cys residue [active] 884204007752 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204007753 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204007754 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 884204007755 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 884204007756 nucleotide binding site [chemical binding]; other site 884204007757 xanthine permease; Region: pbuX; TIGR03173 884204007758 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 884204007759 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 884204007760 Protein export membrane protein; Region: SecD_SecF; cl14618 884204007761 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 884204007762 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 884204007763 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204007764 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204007765 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 884204007766 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204007767 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 884204007768 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 884204007769 hydrophobic ligand binding site; other site 884204007770 Domain of unknown function (DUF427); Region: DUF427; pfam04248 884204007771 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 884204007772 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 884204007773 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 884204007774 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 884204007775 protein binding site [polypeptide binding]; other site 884204007776 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 884204007777 protein binding site [polypeptide binding]; other site 884204007778 sensor protein QseC; Provisional; Region: PRK10337 884204007779 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 884204007780 ATP binding site [chemical binding]; other site 884204007781 Mg2+ binding site [ion binding]; other site 884204007782 G-X-G motif; other site 884204007783 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 884204007784 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 884204007785 active site 884204007786 phosphorylation site [posttranslational modification] 884204007787 intermolecular recognition site; other site 884204007788 dimerization interface [polypeptide binding]; other site 884204007789 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 884204007790 DNA binding site [nucleotide binding] 884204007791 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 884204007792 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 884204007793 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 884204007794 SGNH_hydrolase, or GDSL_hydrolase, is 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 active site closely...; Region: SGNH_hydrolase; cl01053 884204007795 active site 884204007796 catalytic triad [active] 884204007797 oxyanion hole [active] 884204007798 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 884204007799 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 884204007800 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 884204007801 ATP-grasp domain; Region: ATP-grasp; pfam02222 884204007802 AIR carboxylase; Region: AIRC; pfam00731 884204007803 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 884204007804 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 884204007805 ATP binding site [chemical binding]; other site 884204007806 active site 884204007807 substrate binding site [chemical binding]; other site 884204007808 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 884204007809 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 884204007810 intersubunit interface [polypeptide binding]; other site 884204007811 active site 884204007812 zinc binding site [ion binding]; other site 884204007813 Na+ binding site [ion binding]; other site 884204007814 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 884204007815 pyruvate kinase; Provisional; Region: PRK05826 884204007816 active site 884204007817 domain interfaces; other site 884204007818 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 884204007819 Phosphoglycerate kinase; Region: PGK; pfam00162 884204007820 substrate binding site [chemical binding]; other site 884204007821 hinge regions; other site 884204007822 ADP binding site [chemical binding]; other site 884204007823 catalytic site [active] 884204007824 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 884204007825 AzlC protein; Region: AzlC; cl00570 884204007826 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 884204007827 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 884204007828 homodimer interface [polypeptide binding]; other site 884204007829 substrate-cofactor binding pocket; other site 884204007830 catalytic residue [active] 884204007831 Zinc-finger domain; Region: zf-CHCC; cl01821 884204007832 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 884204007833 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 884204007834 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 884204007835 putative active site [active] 884204007836 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 884204007837 SnoaL-like domain; Region: SnoaL_3; pfam13474 884204007838 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 884204007839 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 884204007840 Peptidase family M48; Region: Peptidase_M48; pfam01435 884204007841 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 884204007842 trimer interface [polypeptide binding]; other site 884204007843 dimer interface [polypeptide binding]; other site 884204007844 putative active site [active] 884204007845 Gram-negative bacterial tonB protein; Region: TonB; cl10048 884204007846 hypothetical protein; Provisional; Region: PRK11667 884204007847 O-Antigen ligase; Region: Wzy_C; pfam04932 884204007848 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 884204007849 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 884204007850 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 884204007851 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 884204007852 CoA binding domain; Region: CoA_binding; smart00881 884204007853 CoA-ligase; Region: Ligase_CoA; pfam00549 884204007854 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 884204007855 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 884204007856 CoA-ligase; Region: Ligase_CoA; pfam00549 884204007857 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 884204007858 RecX family; Region: RecX; cl00936 884204007859 recombinase A; Provisional; Region: recA; PRK09354 884204007860 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 884204007861 hexamer interface [polypeptide binding]; other site 884204007862 Walker A motif; other site 884204007863 ATP binding site [chemical binding]; other site 884204007864 Walker B motif; other site 884204007865 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204007866 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 884204007867 active site 884204007868 phosphorylation site [posttranslational modification] 884204007869 intermolecular recognition site; other site 884204007870 dimerization interface [polypeptide binding]; other site 884204007871 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 884204007872 DNA binding site [nucleotide binding] 884204007873 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 884204007874 HAMP domain; Region: HAMP; pfam00672 884204007875 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 884204007876 dimer interface [polypeptide binding]; other site 884204007877 phosphorylation site [posttranslational modification] 884204007878 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 884204007879 ATP binding site [chemical binding]; other site 884204007880 Mg2+ binding site [ion binding]; other site 884204007881 G-X-G motif; other site 884204007882 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 884204007883 putative substrate translocation pore; other site 884204007884 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 884204007885 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 884204007886 Int/Topo IB signature motif; other site 884204007887 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 884204007888 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 884204007889 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204007890 non-specific DNA binding site [nucleotide binding]; other site 884204007891 salt bridge; other site 884204007892 sequence-specific DNA binding site [nucleotide binding]; other site 884204007893 HTH-like domain; Region: HTH_21; pfam13276 884204007894 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 884204007895 Integrase core domain; Region: rve; pfam00665 884204007896 Integrase core domain; Region: rve_3; pfam13683 884204007897 Transposase; Region: HTH_Tnp_1; pfam01527 884204007898 Abortive infection C-terminus; Region: Abi_C; pfam14355 884204007899 BetR domain; Region: BetR; pfam08667 884204007900 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 884204007901 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 884204007902 active site 884204007903 phosphorylation site [posttranslational modification] 884204007904 intermolecular recognition site; other site 884204007905 dimerization interface [polypeptide binding]; other site 884204007906 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 884204007907 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204007908 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 884204007909 dimer interface [polypeptide binding]; other site 884204007910 phosphorylation site [posttranslational modification] 884204007911 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 884204007912 ATP binding site [chemical binding]; other site 884204007913 Mg2+ binding site [ion binding]; other site 884204007914 G-X-G motif; other site 884204007915 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 884204007916 Response regulator receiver domain; Region: Response_reg; pfam00072 884204007917 active site 884204007918 phosphorylation site [posttranslational modification] 884204007919 intermolecular recognition site; other site 884204007920 dimerization interface [polypeptide binding]; other site 884204007921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204007922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204007923 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 884204007924 putative effector binding pocket; other site 884204007925 putative dimerization interface [polypeptide binding]; other site 884204007926 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 884204007927 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 884204007928 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 884204007929 active site 884204007930 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 884204007931 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 884204007932 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 884204007933 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 884204007934 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 884204007935 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 884204007936 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 884204007937 metal binding site [ion binding]; metal-binding site 884204007938 substrate binding pocket [chemical binding]; other site 884204007939 thiamine pyrophosphate protein; Provisional; Region: PRK08273 884204007940 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 884204007941 PYR/PP interface [polypeptide binding]; other site 884204007942 dimer interface [polypeptide binding]; other site 884204007943 tetramer interface [polypeptide binding]; other site 884204007944 TPP binding site [chemical binding]; other site 884204007945 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204007946 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 884204007947 TPP-binding site [chemical binding]; other site 884204007948 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 884204007949 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 884204007950 Cytochrome c; Region: Cytochrom_C; pfam00034 884204007951 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 884204007952 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 884204007953 D-pathway; other site 884204007954 Putative ubiquinol binding site [chemical binding]; other site 884204007955 Low-spin heme (heme b) binding site [chemical binding]; other site 884204007956 Putative water exit pathway; other site 884204007957 Binuclear center (heme o3/CuB) [ion binding]; other site 884204007958 K-pathway; other site 884204007959 Putative proton exit pathway; other site 884204007960 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 884204007961 Subunit I/III interface [polypeptide binding]; other site 884204007962 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204007963 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204007964 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 884204007965 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 884204007966 Transglycosylase; Region: Transgly; cl17702 884204007967 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 884204007968 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204007969 active site 884204007970 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 884204007971 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 884204007972 active site 884204007973 Erythromycin esterase; Region: Erythro_esteras; pfam05139 884204007974 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 884204007975 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 884204007976 dimer interface [polypeptide binding]; other site 884204007977 conserved gate region; other site 884204007978 putative PBP binding loops; other site 884204007979 ABC-ATPase subunit interface; other site 884204007980 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 884204007981 dimer interface [polypeptide binding]; other site 884204007982 ABC-ATPase subunit interface; other site 884204007983 putative PBP binding loops; other site 884204007984 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 884204007985 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 884204007986 Walker A/P-loop; other site 884204007987 ATP binding site [chemical binding]; other site 884204007988 Q-loop/lid; other site 884204007989 ABC transporter signature motif; other site 884204007990 Walker B; other site 884204007991 D-loop; other site 884204007992 H-loop/switch region; other site 884204007993 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 884204007994 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 884204007995 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 884204007996 active site residue [active] 884204007997 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 884204007998 dimerization interface [polypeptide binding]; other site 884204007999 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 884204008000 FAD binding domain; Region: FAD_binding_4; pfam01565 884204008001 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 884204008002 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 884204008003 PAS domain; Region: PAS_9; pfam13426 884204008004 putative active site [active] 884204008005 heme pocket [chemical binding]; other site 884204008006 HAMP domain; Region: HAMP; pfam00672 884204008007 dimerization interface [polypeptide binding]; other site 884204008008 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 884204008009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204008010 dimer interface [polypeptide binding]; other site 884204008011 putative CheW interface [polypeptide binding]; other site 884204008012 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 884204008013 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 884204008014 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 884204008015 active site 884204008016 phosphorylation site [posttranslational modification] 884204008017 intermolecular recognition site; other site 884204008018 dimerization interface [polypeptide binding]; other site 884204008019 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 884204008020 Zn2+ binding site [ion binding]; other site 884204008021 Mg2+ binding site [ion binding]; other site 884204008022 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 884204008023 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 884204008024 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 884204008025 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 884204008026 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204008027 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 884204008028 linker region; other site 884204008029 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 884204008030 ATP binding site [chemical binding]; other site 884204008031 Mg2+ binding site [ion binding]; other site 884204008032 G-X-G motif; other site 884204008033 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 884204008034 active site 884204008035 metal binding site [ion binding]; metal-binding site 884204008036 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 884204008037 Uncharacterized conserved protein [Function unknown]; Region: COG3791 884204008038 galactonate dehydratase; Provisional; Region: PRK14017 884204008039 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 884204008040 putative active site pocket [active] 884204008041 putative metal binding site [ion binding]; other site 884204008042 Copper resistance protein D; Region: CopD; pfam05425 884204008043 Cytochrome c; Region: Cytochrom_C; cl11414 884204008044 Cytochrome c; Region: Cytochrom_C; cl11414 884204008045 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204008046 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204008047 Cytochrome c; Region: Cytochrom_C; pfam00034 884204008048 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 884204008049 ATP binding site [chemical binding]; other site 884204008050 Mg++ binding site [ion binding]; other site 884204008051 motif III; other site 884204008052 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 884204008053 nucleotide binding region [chemical binding]; other site 884204008054 ATP-binding site [chemical binding]; other site 884204008055 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 884204008056 dinuclear metal binding motif [ion binding]; other site 884204008057 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 884204008058 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 884204008059 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 884204008060 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 884204008061 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 884204008062 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 884204008063 glycerol kinase; Provisional; Region: glpK; PRK00047 884204008064 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 884204008065 N- and C-terminal domain interface [polypeptide binding]; other site 884204008066 active site 884204008067 MgATP binding site [chemical binding]; other site 884204008068 catalytic site [active] 884204008069 metal binding site [ion binding]; metal-binding site 884204008070 glycerol binding site [chemical binding]; other site 884204008071 homotetramer interface [polypeptide binding]; other site 884204008072 homodimer interface [polypeptide binding]; other site 884204008073 FBP binding site [chemical binding]; other site 884204008074 protein IIAGlc interface [polypeptide binding]; other site 884204008075 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 884204008076 amphipathic channel; other site 884204008077 Asn-Pro-Ala signature motifs; other site 884204008078 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_6; cd06154 884204008079 homotrimer interaction site [polypeptide binding]; other site 884204008080 putative active site [active] 884204008081 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 884204008082 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 884204008083 putative active site [active] 884204008084 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 884204008085 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 884204008086 hinge; other site 884204008087 active site 884204008088 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 884204008089 active site 884204008090 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 884204008091 dimer interface [polypeptide binding]; other site 884204008092 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 884204008093 Ligand Binding Site [chemical binding]; other site 884204008094 Molecular Tunnel; other site 884204008095 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 884204008096 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 884204008097 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 884204008098 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 884204008099 motif II; other site 884204008100 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 884204008101 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 884204008102 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204008103 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 884204008104 non-specific DNA binding site [nucleotide binding]; other site 884204008105 salt bridge; other site 884204008106 sequence-specific DNA binding site [nucleotide binding]; other site 884204008107 Cupin domain; Region: Cupin_2; pfam07883 884204008108 MFS transport protein AraJ; Provisional; Region: PRK10091 884204008109 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 884204008110 putative substrate translocation pore; other site 884204008111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204008112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204008113 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 884204008114 putative effector binding pocket; other site 884204008115 dimerization interface [polypeptide binding]; other site 884204008116 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 884204008117 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 884204008118 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 884204008119 FeS/SAM binding site; other site 884204008120 TRAM domain; Region: TRAM; pfam01938 884204008121 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 884204008122 PhoH-like protein; Region: PhoH; pfam02562 884204008123 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 884204008124 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 884204008125 putative active site pocket [active] 884204008126 dimerization interface [polypeptide binding]; other site 884204008127 putative catalytic residue [active] 884204008128 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 884204008129 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 884204008130 Transporter associated domain; Region: CorC_HlyC; smart01091 884204008131 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 884204008132 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 884204008133 putative active site [active] 884204008134 catalytic triad [active] 884204008135 putative dimer interface [polypeptide binding]; other site 884204008136 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 884204008137 dimer interface [polypeptide binding]; other site 884204008138 motif 1; other site 884204008139 active site 884204008140 motif 2; other site 884204008141 motif 3; other site 884204008142 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 884204008143 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 884204008144 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 884204008145 active site 884204008146 motif I; other site 884204008147 motif II; other site 884204008148 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 884204008149 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 884204008150 putative acyl-acceptor binding pocket; other site 884204008151 Protein of unknown function DUF45; Region: DUF45; pfam01863 884204008152 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204008153 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 884204008154 dimer interface [polypeptide binding]; other site 884204008155 active site 884204008156 metal binding site [ion binding]; metal-binding site 884204008157 glutathione binding site [chemical binding]; other site 884204008158 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 884204008159 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 884204008160 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 884204008161 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 884204008162 SurA N-terminal domain; Region: SurA_N; pfam09312 884204008163 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 884204008164 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 884204008165 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 884204008166 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 884204008167 Organic solvent tolerance protein; Region: OstA_C; pfam04453 884204008168 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 884204008169 Phosphotransferase enzyme family; Region: APH; pfam01636 884204008170 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 884204008171 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 884204008172 Substrate binding site; other site 884204008173 metal-binding site 884204008174 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 884204008175 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 884204008176 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204008177 Walker A/P-loop; other site 884204008178 ATP binding site [chemical binding]; other site 884204008179 Q-loop/lid; other site 884204008180 ABC transporter signature motif; other site 884204008181 Walker B; other site 884204008182 D-loop; other site 884204008183 H-loop/switch region; other site 884204008184 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 884204008185 conserved hypothetical protein; Region: nitr_red_assoc; TIGR02664 884204008186 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 884204008187 enoyl-CoA hydratase; Provisional; Region: PRK06688 884204008188 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 884204008189 substrate binding site [chemical binding]; other site 884204008190 oxyanion hole (OAH) forming residues; other site 884204008191 trimer interface [polypeptide binding]; other site 884204008192 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 884204008193 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 884204008194 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 884204008195 dimer interface [polypeptide binding]; other site 884204008196 active site 884204008197 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 884204008198 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 884204008199 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 884204008200 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 884204008201 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 884204008202 substrate binding site [chemical binding]; other site 884204008203 oxyanion hole (OAH) forming residues; other site 884204008204 trimer interface [polypeptide binding]; other site 884204008205 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 884204008206 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 884204008207 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 884204008208 FAD binding site [chemical binding]; other site 884204008209 substrate binding site [chemical binding]; other site 884204008210 catalytic residues [active] 884204008211 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 884204008212 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 884204008213 PLD-like domain; Region: PLDc_2; pfam13091 884204008214 putative active site [active] 884204008215 catalytic site [active] 884204008216 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 884204008217 PLD-like domain; Region: PLDc_2; pfam13091 884204008218 putative active site [active] 884204008219 catalytic site [active] 884204008220 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 884204008221 nudix motif; other site 884204008222 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 884204008223 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 884204008224 dimer interface [polypeptide binding]; other site 884204008225 anticodon binding site; other site 884204008226 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 884204008227 homodimer interface [polypeptide binding]; other site 884204008228 motif 1; other site 884204008229 active site 884204008230 motif 2; other site 884204008231 GAD domain; Region: GAD; pfam02938 884204008232 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 884204008233 motif 3; other site 884204008234 Uncharacterized conserved protein [Function unknown]; Region: COG2928 884204008235 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 884204008236 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 884204008237 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 884204008238 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 884204008239 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 884204008240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 884204008241 SCP-2 sterol transfer family; Region: SCP2; pfam02036 884204008242 Tim44-like domain; Region: Tim44; pfam04280 884204008243 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 884204008244 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 884204008245 S-adenosylmethionine binding site [chemical binding]; other site 884204008246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 884204008247 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 884204008248 nucleotide binding site/active site [active] 884204008249 HIT family signature motif; other site 884204008250 catalytic residue [active] 884204008251 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 884204008252 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 884204008253 FAD binding domain; Region: FAD_binding_4; pfam01565 884204008254 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 884204008255 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 884204008256 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 884204008257 Cysteine-rich domain; Region: CCG; pfam02754 884204008258 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 884204008259 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 884204008260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 884204008261 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 884204008262 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 884204008263 homotrimer interaction site [polypeptide binding]; other site 884204008264 putative active site [active] 884204008265 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 884204008266 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 884204008267 active site 884204008268 putative substrate binding pocket [chemical binding]; other site 884204008269 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 884204008270 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 884204008271 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 884204008272 putative active site [active] 884204008273 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 884204008274 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 884204008275 dimer interface [polypeptide binding]; other site 884204008276 active site 884204008277 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 884204008278 substrate binding site [chemical binding]; other site 884204008279 catalytic residue [active] 884204008280 intracellular protease, PfpI family; Region: PfpI; TIGR01382 884204008281 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 884204008282 conserved cys residue [active] 884204008283 Transcriptional regulators [Transcription]; Region: MarR; COG1846 884204008284 MarR family; Region: MarR; pfam01047 884204008285 MarR family; Region: MarR_2; cl17246 884204008286 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 884204008287 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204008288 putative substrate translocation pore; other site 884204008289 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 884204008290 EcsC protein family; Region: EcsC; pfam12787 884204008291 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 884204008292 CHRD domain; Region: CHRD; pfam07452 884204008293 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 884204008294 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 884204008295 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204008296 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 884204008297 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 884204008298 SLBB domain; Region: SLBB; pfam10531 884204008299 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 884204008300 Bacterial sugar transferase; Region: Bac_transf; pfam02397 884204008301 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 884204008302 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 884204008303 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 884204008304 non-specific DNA interactions [nucleotide binding]; other site 884204008305 DNA binding site [nucleotide binding] 884204008306 sequence specific DNA binding site [nucleotide binding]; other site 884204008307 putative cAMP binding site [chemical binding]; other site 884204008308 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 884204008309 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 884204008310 ligand binding site [chemical binding]; other site 884204008311 flexible hinge region; other site 884204008312 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 884204008313 acyl carrier protein; Provisional; Region: PRK07081 884204008314 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204008315 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204008316 active site 884204008317 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204008318 active site 884204008319 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 884204008320 dimer interface [polypeptide binding]; other site 884204008321 motif 1; other site 884204008322 active site 884204008323 motif 2; other site 884204008324 motif 3; other site 884204008325 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 884204008326 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 884204008327 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 884204008328 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 884204008329 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204008330 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 884204008331 Walker A motif; other site 884204008332 ATP binding site [chemical binding]; other site 884204008333 Walker B motif; other site 884204008334 arginine finger; other site 884204008335 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 884204008336 active site 884204008337 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204008338 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 884204008339 putative ADP-binding pocket [chemical binding]; other site 884204008340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204008341 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 884204008342 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 884204008343 Substrate binding site; other site 884204008344 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 884204008345 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 884204008346 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204008347 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 884204008348 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 884204008349 PAS domain; Region: PAS; smart00091 884204008350 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 884204008351 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204008352 metal binding site [ion binding]; metal-binding site 884204008353 active site 884204008354 I-site; other site 884204008355 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 884204008356 aldolase II superfamily protein; Provisional; Region: PRK07044 884204008357 intersubunit interface [polypeptide binding]; other site 884204008358 active site 884204008359 Zn2+ binding site [ion binding]; other site 884204008360 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 884204008361 YcaO-like family; Region: YcaO; pfam02624 884204008362 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 884204008363 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 884204008364 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 884204008365 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 884204008366 active site 884204008367 ATP binding site [chemical binding]; other site 884204008368 substrate binding site [chemical binding]; other site 884204008369 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 884204008370 activation loop (A-loop); other site 884204008371 cyclase homology domain; Region: CHD; cd07302 884204008372 dimer interface [polypeptide binding]; other site 884204008373 nucleotidyl binding site; other site 884204008374 metal binding site [ion binding]; metal-binding site 884204008375 AAA ATPase domain; Region: AAA_16; pfam13191 884204008376 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 884204008377 phosphopeptide binding site; other site 884204008378 Tetratricopeptide repeat; Region: TPR_12; pfam13424 884204008379 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 884204008380 Family description; Region: VCBS; pfam13517 884204008381 Family description; Region: VCBS; pfam13517 884204008382 Family description; Region: VCBS; pfam13517 884204008383 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 884204008384 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 884204008385 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 884204008386 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 884204008387 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 884204008388 AAA domain; Region: AAA_23; pfam13476 884204008389 AAA domain; Region: AAA_21; pfam13304 884204008390 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 884204008391 ABC transporter signature motif; other site 884204008392 Walker B; other site 884204008393 D-loop; other site 884204008394 H-loop/switch region; other site 884204008395 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 884204008396 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 884204008397 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 884204008398 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 884204008399 dimer interface [polypeptide binding]; other site 884204008400 ssDNA binding site [nucleotide binding]; other site 884204008401 tetramer (dimer of dimers) interface [polypeptide binding]; other site 884204008402 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 884204008403 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204008404 putative substrate translocation pore; other site 884204008405 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 884204008406 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 884204008407 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 884204008408 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 884204008409 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 884204008410 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 884204008411 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 884204008412 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 884204008413 putative active site [active] 884204008414 putative substrate binding site [chemical binding]; other site 884204008415 putative cosubstrate binding site; other site 884204008416 catalytic site [active] 884204008417 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 884204008418 nudix motif; other site 884204008419 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204008420 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204008421 active site 884204008422 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 884204008423 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 884204008424 TrkA-N domain; Region: TrkA_N; pfam02254 884204008425 TrkA-C domain; Region: TrkA_C; pfam02080 884204008426 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 884204008427 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 884204008428 putative active site [active] 884204008429 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 884204008430 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 884204008431 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 884204008432 active site 884204008433 motif I; other site 884204008434 motif II; other site 884204008435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 884204008436 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 884204008437 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 884204008438 OstA-like protein; Region: OstA; pfam03968 884204008439 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 884204008440 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 884204008441 Walker A/P-loop; other site 884204008442 ATP binding site [chemical binding]; other site 884204008443 Q-loop/lid; other site 884204008444 ABC transporter signature motif; other site 884204008445 Walker B; other site 884204008446 D-loop; other site 884204008447 H-loop/switch region; other site 884204008448 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 884204008449 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 884204008450 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 884204008451 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 884204008452 30S subunit binding site; other site 884204008453 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 884204008454 active site 884204008455 phosphorylation site [posttranslational modification] 884204008456 HPr kinase/phosphorylase; Provisional; Region: PRK05428 884204008457 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 884204008458 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 884204008459 Hpr binding site; other site 884204008460 active site 884204008461 homohexamer subunit interaction site [polypeptide binding]; other site 884204008462 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 884204008463 AAA domain; Region: AAA_18; pfam13238 884204008464 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 884204008465 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 884204008466 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 884204008467 minor groove reading motif; other site 884204008468 helix-hairpin-helix signature motif; other site 884204008469 active site 884204008470 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 884204008471 DNA binding and oxoG recognition site [nucleotide binding] 884204008472 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 884204008473 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 884204008474 DNA binding site [nucleotide binding] 884204008475 catalytic residue [active] 884204008476 H2TH interface [polypeptide binding]; other site 884204008477 putative catalytic residues [active] 884204008478 turnover-facilitating residue; other site 884204008479 intercalation triad [nucleotide binding]; other site 884204008480 8OG recognition residue [nucleotide binding]; other site 884204008481 putative reading head residues; other site 884204008482 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 884204008483 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 884204008484 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 884204008485 binding surface 884204008486 TPR motif; other site 884204008487 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 884204008488 binding surface 884204008489 TPR motif; other site 884204008490 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 884204008491 binding surface 884204008492 TPR motif; other site 884204008493 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 884204008494 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 884204008495 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 884204008496 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 884204008497 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 884204008498 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204008499 active site 884204008500 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 884204008501 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 884204008502 5S rRNA interface [nucleotide binding]; other site 884204008503 CTC domain interface [polypeptide binding]; other site 884204008504 L16 interface [polypeptide binding]; other site 884204008505 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 884204008506 putative active site [active] 884204008507 catalytic residue [active] 884204008508 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 884204008509 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 884204008510 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204008511 homodimer interface [polypeptide binding]; other site 884204008512 catalytic residue [active] 884204008513 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 884204008514 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 884204008515 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 884204008516 active site 884204008517 (T/H)XGH motif; other site 884204008518 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 884204008519 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 884204008520 S-adenosylmethionine binding site [chemical binding]; other site 884204008521 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 884204008522 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 884204008523 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 884204008524 P loop; other site 884204008525 GTP binding site [chemical binding]; other site 884204008526 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 884204008527 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 884204008528 C-terminal domain interface [polypeptide binding]; other site 884204008529 GSH binding site (G-site) [chemical binding]; other site 884204008530 putative dimer interface [polypeptide binding]; other site 884204008531 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 884204008532 dimer interface [polypeptide binding]; other site 884204008533 N-terminal domain interface [polypeptide binding]; other site 884204008534 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 884204008535 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 884204008536 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204008537 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 884204008538 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 884204008539 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 884204008540 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 884204008541 [2Fe-2S] cluster binding site [ion binding]; other site 884204008542 Molybdopterin oxidoreductase Fe4S4 domain; Region: Molybdop_Fe4S4; smart00926 884204008543 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 884204008544 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 884204008545 molybdopterin cofactor binding site; other site 884204008546 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 884204008547 molybdopterin cofactor binding site; other site 884204008548 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 884204008549 glycosyl transferase family protein; Provisional; Region: PRK08136 884204008550 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 884204008551 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204008552 Coenzyme A binding pocket [chemical binding]; other site 884204008553 2-isopropylmalate synthase; Validated; Region: PRK03739 884204008554 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 884204008555 active site 884204008556 catalytic residues [active] 884204008557 metal binding site [ion binding]; metal-binding site 884204008558 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 884204008559 SnoaL-like domain; Region: SnoaL_3; pfam13474 884204008560 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 884204008561 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 884204008562 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 884204008563 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204008564 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 884204008565 DNA binding residues [nucleotide binding] 884204008566 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 884204008567 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 884204008568 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 884204008569 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 884204008570 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 884204008571 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 884204008572 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 884204008573 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 884204008574 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 884204008575 active site 884204008576 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 884204008577 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 884204008578 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 884204008579 active site turn [active] 884204008580 phosphorylation site [posttranslational modification] 884204008581 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 884204008582 HPr interaction site; other site 884204008583 glycerol kinase (GK) interaction site [polypeptide binding]; other site 884204008584 active site 884204008585 phosphorylation site [posttranslational modification] 884204008586 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 884204008587 dimerization domain swap beta strand [polypeptide binding]; other site 884204008588 regulatory protein interface [polypeptide binding]; other site 884204008589 active site 884204008590 regulatory phosphorylation site [posttranslational modification]; other site 884204008591 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 884204008592 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 884204008593 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 884204008594 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 884204008595 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 884204008596 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 884204008597 dimer interface [polypeptide binding]; other site 884204008598 active site 884204008599 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 884204008600 dimer interface [polypeptide binding]; other site 884204008601 active site 884204008602 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 884204008603 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 884204008604 active site 884204008605 dimer interface [polypeptide binding]; other site 884204008606 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 884204008607 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204008608 DNA-binding site [nucleotide binding]; DNA binding site 884204008609 UTRA domain; Region: UTRA; pfam07702 884204008610 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 884204008611 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204008612 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 884204008613 dimerization interface [polypeptide binding]; other site 884204008614 substrate binding pocket [chemical binding]; other site 884204008615 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 884204008616 acyl-CoA synthetase; Validated; Region: PRK09192 884204008617 acyl-activating enzyme (AAE) consensus motif; other site 884204008618 active site 884204008619 Phosphopantetheine attachment site; Region: PP-binding; cl09936 884204008620 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 884204008621 dinuclear metal binding motif [ion binding]; other site 884204008622 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 884204008623 active site 884204008624 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes; Region: PLPDE_III_ODC_DapDC_like; cd06810 884204008625 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 884204008626 dimer interface [polypeptide binding]; other site 884204008627 active site 884204008628 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 884204008629 catalytic residues [active] 884204008630 substrate binding site [chemical binding]; other site 884204008631 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 884204008632 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204008633 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204008634 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204008635 acyl-activating enzyme (AAE) consensus motif; other site 884204008636 acyl-activating enzyme (AAE) consensus motif; other site 884204008637 AMP binding site [chemical binding]; other site 884204008638 active site 884204008639 CoA binding site [chemical binding]; other site 884204008640 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 884204008641 active site 884204008642 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 884204008643 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204008644 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204008645 active site 884204008646 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 884204008647 Citrate synthase; Region: Citrate_synt; pfam00285 884204008648 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 884204008649 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 884204008650 citrylCoA binding site [chemical binding]; other site 884204008651 oxalacetate binding site [chemical binding]; other site 884204008652 coenzyme A binding site [chemical binding]; other site 884204008653 catalytic triad [active] 884204008654 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204008655 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 884204008656 S-adenosylmethionine binding site [chemical binding]; other site 884204008657 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 884204008658 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 884204008659 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204008660 Walker A/P-loop; other site 884204008661 ATP binding site [chemical binding]; other site 884204008662 Q-loop/lid; other site 884204008663 ABC transporter signature motif; other site 884204008664 Walker B; other site 884204008665 D-loop; other site 884204008666 H-loop/switch region; other site 884204008667 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 884204008668 ABC-2 type transporter; Region: ABC2_membrane; cl17235 884204008669 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 884204008670 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 884204008671 inhibitor-cofactor binding pocket; inhibition site 884204008672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204008673 catalytic residue [active] 884204008674 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 884204008675 Fatty acid desaturase; Region: FA_desaturase; pfam00487 884204008676 putative di-iron ligands [ion binding]; other site 884204008677 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 884204008678 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 884204008679 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 884204008680 putative active site [active] 884204008681 putative PHP Thumb interface [polypeptide binding]; other site 884204008682 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 884204008683 generic binding surface II; other site 884204008684 generic binding surface I; other site 884204008685 DNA Polymerase Y-family; Region: PolY_like; cd03468 884204008686 active site 884204008687 DNA binding site [nucleotide binding] 884204008688 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 884204008689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204008690 Walker A/P-loop; other site 884204008691 ATP binding site [chemical binding]; other site 884204008692 Q-loop/lid; other site 884204008693 ABC transporter signature motif; other site 884204008694 Walker B; other site 884204008695 D-loop; other site 884204008696 H-loop/switch region; other site 884204008697 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204008698 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 884204008699 TM-ABC transporter signature motif; other site 884204008700 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 884204008701 zinc binding site [ion binding]; other site 884204008702 putative ligand binding site [chemical binding]; other site 884204008703 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 884204008704 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 884204008705 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 884204008706 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 884204008707 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 884204008708 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204008709 dimer interface [polypeptide binding]; other site 884204008710 putative CheW interface [polypeptide binding]; other site 884204008711 YCII-related domain; Region: YCII; cl00999 884204008712 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 884204008713 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 884204008714 Cu(I) binding site [ion binding]; other site 884204008715 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 884204008716 UbiA prenyltransferase family; Region: UbiA; pfam01040 884204008717 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 884204008718 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 884204008719 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 884204008720 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 884204008721 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 884204008722 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 884204008723 Subunit III/VIIa interface [polypeptide binding]; other site 884204008724 Phospholipid binding site [chemical binding]; other site 884204008725 Subunit I/III interface [polypeptide binding]; other site 884204008726 Subunit III/VIb interface [polypeptide binding]; other site 884204008727 Subunit III/VIa interface; other site 884204008728 Subunit III/Vb interface [polypeptide binding]; other site 884204008729 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 884204008730 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 884204008731 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 884204008732 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 884204008733 Subunit I/III interface [polypeptide binding]; other site 884204008734 D-pathway; other site 884204008735 Subunit I/VIIc interface [polypeptide binding]; other site 884204008736 Subunit I/IV interface [polypeptide binding]; other site 884204008737 Subunit I/II interface [polypeptide binding]; other site 884204008738 Low-spin heme (heme a) binding site [chemical binding]; other site 884204008739 Subunit I/VIIa interface [polypeptide binding]; other site 884204008740 Subunit I/VIa interface [polypeptide binding]; other site 884204008741 Dimer interface; other site 884204008742 Putative water exit pathway; other site 884204008743 Binuclear center (heme a3/CuB) [ion binding]; other site 884204008744 K-pathway; other site 884204008745 Subunit I/Vb interface [polypeptide binding]; other site 884204008746 Putative proton exit pathway; other site 884204008747 Subunit I/VIb interface; other site 884204008748 Subunit I/VIc interface [polypeptide binding]; other site 884204008749 Electron transfer pathway; other site 884204008750 Subunit I/VIIIb interface [polypeptide binding]; other site 884204008751 Subunit I/VIIb interface [polypeptide binding]; other site 884204008752 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 884204008753 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 884204008754 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 884204008755 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204008756 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 884204008757 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 884204008758 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204008759 ligand binding site [chemical binding]; other site 884204008760 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 884204008761 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 884204008762 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 884204008763 S-adenosylmethionine binding site [chemical binding]; other site 884204008764 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 884204008765 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204008766 active site 884204008767 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 884204008768 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 884204008769 putative ADP-ribose binding site [chemical binding]; other site 884204008770 putative active site [active] 884204008771 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 884204008772 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 884204008773 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 884204008774 preprotein translocase subunit SecB; Validated; Region: PRK05751 884204008775 SecA binding site; other site 884204008776 Preprotein binding site; other site 884204008777 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 884204008778 GSH binding site [chemical binding]; other site 884204008779 catalytic residues [active] 884204008780 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 884204008781 active site residue [active] 884204008782 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 884204008783 catalytic core [active] 884204008784 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 884204008785 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 884204008786 C-terminal peptidase (prc); Region: prc; TIGR00225 884204008787 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 884204008788 protein binding site [polypeptide binding]; other site 884204008789 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 884204008790 Catalytic dyad [active] 884204008791 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 884204008792 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 884204008793 ATP binding site [chemical binding]; other site 884204008794 substrate interface [chemical binding]; other site 884204008795 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 884204008796 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 884204008797 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 884204008798 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 884204008799 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 884204008800 regulatory protein interface [polypeptide binding]; other site 884204008801 active site 884204008802 regulatory phosphorylation site [posttranslational modification]; other site 884204008803 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 884204008804 active pocket/dimerization site; other site 884204008805 active site 884204008806 phosphorylation site [posttranslational modification] 884204008807 glutathione synthetase; Provisional; Region: PRK05246 884204008808 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 884204008809 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 884204008810 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 884204008811 Glutamate-cysteine ligase; Region: GshA; pfam08886 884204008812 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 884204008813 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 884204008814 Nitrogen regulatory protein P-II; Region: P-II; smart00938 884204008815 Membrane fusogenic activity; Region: BMFP; pfam04380 884204008816 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 884204008817 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 884204008818 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 884204008819 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 884204008820 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 884204008821 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204008822 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 884204008823 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 884204008824 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 884204008825 catalytic residues [active] 884204008826 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204008827 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 884204008828 active site 884204008829 phosphorylation site [posttranslational modification] 884204008830 intermolecular recognition site; other site 884204008831 dimerization interface [polypeptide binding]; other site 884204008832 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 884204008833 Walker A motif; other site 884204008834 ATP binding site [chemical binding]; other site 884204008835 Walker B motif; other site 884204008836 arginine finger; other site 884204008837 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204008838 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 884204008839 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 884204008840 dimer interface [polypeptide binding]; other site 884204008841 phosphorylation site [posttranslational modification] 884204008842 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 884204008843 ATP binding site [chemical binding]; other site 884204008844 Mg2+ binding site [ion binding]; other site 884204008845 G-X-G motif; other site 884204008846 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 884204008847 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 884204008848 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 884204008849 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 884204008850 Na binding site [ion binding]; other site 884204008851 Protein of unknown function, DUF485; Region: DUF485; pfam04341 884204008852 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 884204008853 CoA-transferase family III; Region: CoA_transf_3; pfam02515 884204008854 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 884204008855 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 884204008856 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 884204008857 active site 884204008858 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 884204008859 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 884204008860 FAD binding site [chemical binding]; other site 884204008861 substrate binding site [chemical binding]; other site 884204008862 catalytic base [active] 884204008863 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 884204008864 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 884204008865 substrate binding site [chemical binding]; other site 884204008866 oxyanion hole (OAH) forming residues; other site 884204008867 trimer interface [polypeptide binding]; other site 884204008868 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 884204008869 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 884204008870 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 884204008871 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204008872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204008873 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 884204008874 putative effector binding pocket; other site 884204008875 dimerization interface [polypeptide binding]; other site 884204008876 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 884204008877 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 884204008878 lipoyl synthase; Provisional; Region: PRK05481 884204008879 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 884204008880 FeS/SAM binding site; other site 884204008881 lipoate-protein ligase B; Provisional; Region: PRK14343 884204008882 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 884204008883 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 884204008884 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204008885 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 884204008886 dimerization interface [polypeptide binding]; other site 884204008887 substrate binding pocket [chemical binding]; other site 884204008888 hypothetical protein; Provisional; Region: PRK02047 884204008889 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 884204008890 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 884204008891 homodimer interface [polypeptide binding]; other site 884204008892 substrate-cofactor binding pocket; other site 884204008893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204008894 catalytic residue [active] 884204008895 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 884204008896 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 884204008897 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 884204008898 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 884204008899 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 884204008900 dimer interface [polypeptide binding]; other site 884204008901 [2Fe-2S] cluster binding site [ion binding]; other site 884204008902 Protein of unknown function (DUF330); Region: DUF330; pfam03886 884204008903 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 884204008904 mce related protein; Region: MCE; pfam02470 884204008905 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 884204008906 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 884204008907 Walker A/P-loop; other site 884204008908 ATP binding site [chemical binding]; other site 884204008909 Q-loop/lid; other site 884204008910 ABC transporter signature motif; other site 884204008911 Walker B; other site 884204008912 D-loop; other site 884204008913 H-loop/switch region; other site 884204008914 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 884204008915 Permease; Region: Permease; pfam02405 884204008916 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 884204008917 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 884204008918 active site 884204008919 metal binding site [ion binding]; metal-binding site 884204008920 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 884204008921 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 884204008922 Sel1 repeat; Region: Sel1; cl02723 884204008923 Sel1-like repeats; Region: SEL1; smart00671 884204008924 biotin--protein ligase; Provisional; Region: PRK06955 884204008925 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 884204008926 pantothenate kinase; Reviewed; Region: PRK13328 884204008927 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 884204008928 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 884204008929 active site 884204008930 HIGH motif; other site 884204008931 nucleotide binding site [chemical binding]; other site 884204008932 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 884204008933 dinuclear metal binding motif [ion binding]; other site 884204008934 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 884204008935 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 884204008936 active site 884204008937 nucleophile elbow; other site 884204008938 enoyl-CoA hydratase; Provisional; Region: PRK07657 884204008939 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 884204008940 substrate binding site [chemical binding]; other site 884204008941 oxyanion hole (OAH) forming residues; other site 884204008942 trimer interface [polypeptide binding]; other site 884204008943 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 884204008944 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 884204008945 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 884204008946 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 884204008947 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204008948 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204008949 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 884204008950 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 884204008951 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 884204008952 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 884204008953 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 884204008954 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 884204008955 substrate binding pocket [chemical binding]; other site 884204008956 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 884204008957 B12 binding site [chemical binding]; other site 884204008958 cobalt ligand [ion binding]; other site 884204008959 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 884204008960 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 884204008961 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 884204008962 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 884204008963 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 884204008964 active site 884204008965 HIGH motif; other site 884204008966 KMSK motif region; other site 884204008967 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 884204008968 tRNA binding surface [nucleotide binding]; other site 884204008969 anticodon binding site; other site 884204008970 Sporulation related domain; Region: SPOR; pfam05036 884204008971 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 884204008972 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 884204008973 catalytic residues [active] 884204008974 hinge region; other site 884204008975 alpha helical domain; other site 884204008976 short chain dehydrogenase; Provisional; Region: PRK07024 884204008977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204008978 NAD(P) binding site [chemical binding]; other site 884204008979 active site 884204008980 short chain dehydrogenase; Validated; Region: PRK08264 884204008981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204008982 NAD(P) binding site [chemical binding]; other site 884204008983 active site 884204008984 MarR family; Region: MarR_2; cl17246 884204008985 Transcriptional regulators [Transcription]; Region: MarR; COG1846 884204008986 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 884204008987 active site 884204008988 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 884204008989 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 884204008990 peptide binding site [polypeptide binding]; other site 884204008991 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 884204008992 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204008993 Walker A/P-loop; other site 884204008994 ATP binding site [chemical binding]; other site 884204008995 Q-loop/lid; other site 884204008996 ABC transporter signature motif; other site 884204008997 Walker B; other site 884204008998 D-loop; other site 884204008999 H-loop/switch region; other site 884204009000 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 884204009001 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 884204009002 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 884204009003 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 884204009004 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 884204009005 active site clefts [active] 884204009006 zinc binding site [ion binding]; other site 884204009007 dimer interface [polypeptide binding]; other site 884204009008 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 884204009009 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 884204009010 dimer interface [polypeptide binding]; other site 884204009011 active site 884204009012 short chain dehydrogenase; Provisional; Region: PRK06953 884204009013 NAD(P) binding site [chemical binding]; other site 884204009014 active site 884204009015 hypothetical protein; Provisional; Region: PRK01842 884204009016 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 884204009017 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 884204009018 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 884204009019 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 884204009020 inhibitor-cofactor binding pocket; inhibition site 884204009021 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204009022 catalytic residue [active] 884204009023 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 884204009024 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 884204009025 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204009026 catalytic residue [active] 884204009027 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 884204009028 AAA domain; Region: AAA_26; pfam13500 884204009029 biotin synthase; Region: bioB; TIGR00433 884204009030 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 884204009031 FeS/SAM binding site; other site 884204009032 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 884204009033 CutC family; Region: CutC; cl01218 884204009034 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 884204009035 Alkaline phosphatase homologues; Region: alkPPc; smart00098 884204009036 active site 884204009037 dimer interface [polypeptide binding]; other site 884204009038 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 884204009039 dimer interface [polypeptide binding]; other site 884204009040 Alkaline phosphatase homologues; Region: alkPPc; smart00098 884204009041 active site 884204009042 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 884204009043 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 884204009044 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 884204009045 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 884204009046 dimer interface [polypeptide binding]; other site 884204009047 PYR/PP interface [polypeptide binding]; other site 884204009048 TPP binding site [chemical binding]; other site 884204009049 substrate binding site [chemical binding]; other site 884204009050 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 884204009051 TPP-binding site [chemical binding]; other site 884204009052 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 884204009053 Inward rectifier potassium channel; Region: IRK; pfam01007 884204009054 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 884204009055 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 884204009056 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 884204009057 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 884204009058 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204009059 Inclusion body protein; Region: PixA; pfam12306 884204009060 Inclusion body protein; Region: PixA; pfam12306 884204009061 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 884204009062 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 884204009063 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 884204009064 dimer interface [polypeptide binding]; other site 884204009065 active site 884204009066 catalytic residue [active] 884204009067 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 884204009068 Kelch motif; Region: Kelch_6; pfam13964 884204009069 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 884204009070 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 884204009071 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 884204009072 Cu(I) binding site [ion binding]; other site 884204009073 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 884204009074 Predicted membrane protein [Function unknown]; Region: COG4541 884204009075 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 884204009076 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204009077 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 884204009078 putative DNA binding site [nucleotide binding]; other site 884204009079 putative Zn2+ binding site [ion binding]; other site 884204009080 AsnC family; Region: AsnC_trans_reg; pfam01037 884204009081 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 884204009082 Phosphoesterase family; Region: Phosphoesterase; pfam04185 884204009083 Domain of unknown function (DUF756); Region: DUF756; pfam05506 884204009084 Domain of unknown function (DUF756); Region: DUF756; pfam05506 884204009085 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_20; cd04679 884204009086 nudix motif; other site 884204009087 Serine hydrolase; Region: Ser_hydrolase; pfam06821 884204009088 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 884204009089 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 884204009090 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204009091 putative metal binding site [ion binding]; other site 884204009092 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 884204009093 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 884204009094 putative ligand binding site [chemical binding]; other site 884204009095 NAD binding site [chemical binding]; other site 884204009096 dimerization interface [polypeptide binding]; other site 884204009097 catalytic site [active] 884204009098 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 884204009099 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 884204009100 active site 884204009101 catalytic residues [active] 884204009102 metal binding site [ion binding]; metal-binding site 884204009103 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 884204009104 putative deacylase active site [active] 884204009105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 884204009106 Transposase; Region: DDE_Tnp_ISL3; pfam01610 884204009107 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 884204009108 EamA-like transporter family; Region: EamA; pfam00892 884204009109 EamA-like transporter family; Region: EamA; pfam00892 884204009110 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204009111 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 884204009112 dimerization interface [polypeptide binding]; other site 884204009113 putative DNA binding site [nucleotide binding]; other site 884204009114 putative Zn2+ binding site [ion binding]; other site 884204009115 AsnC family; Region: AsnC_trans_reg; pfam01037 884204009116 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204009117 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 884204009118 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 884204009119 FMN binding site [chemical binding]; other site 884204009120 substrate binding site [chemical binding]; other site 884204009121 putative catalytic residue [active] 884204009122 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204009123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204009124 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 884204009125 putative effector binding pocket; other site 884204009126 dimerization interface [polypeptide binding]; other site 884204009127 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 884204009128 trimer interface [polypeptide binding]; other site 884204009129 eyelet of channel; other site 884204009130 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204009131 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 884204009132 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 884204009133 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 884204009134 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204009135 dimer interface [polypeptide binding]; other site 884204009136 putative CheW interface [polypeptide binding]; other site 884204009137 Transcriptional regulators [Transcription]; Region: PurR; COG1609 884204009138 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 884204009139 DNA binding site [nucleotide binding] 884204009140 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 884204009141 ligand binding site [chemical binding]; other site 884204009142 dimerization interface [polypeptide binding]; other site 884204009143 dimerization interface [polypeptide binding]; other site 884204009144 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 884204009145 putative active cleft [active] 884204009146 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 884204009147 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 884204009148 putative substrate binding site [chemical binding]; other site 884204009149 putative ATP binding site [chemical binding]; other site 884204009150 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 884204009151 Uncharacterized conserved protein [Function unknown]; Region: COG1565 884204009152 short chain dehydrogenase; Provisional; Region: PRK09134 884204009153 Dihydroneopterin aldolase; Region: FolB; smart00905 884204009154 active site 884204009155 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 884204009156 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 884204009157 Ligand Binding Site [chemical binding]; other site 884204009158 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 884204009159 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 884204009160 Substrate binding site; other site 884204009161 Mg++ binding site; other site 884204009162 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 884204009163 active site 884204009164 substrate binding site [chemical binding]; other site 884204009165 CoA binding site [chemical binding]; other site 884204009166 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 884204009167 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 884204009168 glutaminase active site [active] 884204009169 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 884204009170 dimer interface [polypeptide binding]; other site 884204009171 active site 884204009172 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 884204009173 dimer interface [polypeptide binding]; other site 884204009174 active site 884204009175 Avidin family; Region: Avidin; pfam01382 884204009176 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 884204009177 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 884204009178 HlyD family secretion protein; Region: HlyD_2; pfam12700 884204009179 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204009180 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 884204009181 Repair protein; Region: Repair_PSII; pfam04536 884204009182 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 884204009183 Repair protein; Region: Repair_PSII; pfam04536 884204009184 LemA family; Region: LemA; pfam04011 884204009185 YHS domain; Region: YHS; pfam04945 884204009186 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 884204009187 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 884204009188 Soluble P-type ATPase [General function prediction only]; Region: COG4087 884204009189 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; cl00207 884204009190 argininosuccinate synthase; Validated; Region: PRK05370 884204009191 argininosuccinate synthase; Provisional; Region: PRK13820 884204009192 glutathione reductase; Validated; Region: PRK06116 884204009193 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204009194 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204009195 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 884204009196 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 884204009197 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 884204009198 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 884204009199 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 884204009200 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 884204009201 ligand binding site; other site 884204009202 putative membrane protein; Region: HpnL; TIGR03476 884204009203 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204009204 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 884204009205 trimer interface [polypeptide binding]; other site 884204009206 eyelet of channel; other site 884204009207 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 884204009208 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 884204009209 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 884204009210 PhnA protein; Region: PhnA; pfam03831 884204009211 Chromate transporter; Region: Chromate_transp; pfam02417 884204009212 Chromate transporter; Region: Chromate_transp; pfam02417 884204009213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204009214 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 884204009215 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 884204009216 dimerization interface [polypeptide binding]; other site 884204009217 substrate binding pocket [chemical binding]; other site 884204009218 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 884204009219 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 884204009220 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 884204009221 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 884204009222 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 884204009223 Flagellar regulator YcgR; Region: YcgR; pfam07317 884204009224 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 884204009225 PilZ domain; Region: PilZ; pfam07238 884204009226 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 884204009227 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 884204009228 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 884204009229 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 884204009230 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 884204009231 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 884204009232 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 884204009233 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 884204009234 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 884204009235 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 884204009236 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 884204009237 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 884204009238 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 884204009239 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 884204009240 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 884204009241 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 884204009242 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 884204009243 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 884204009244 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 884204009245 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 884204009246 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 884204009247 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 884204009248 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 884204009249 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 884204009250 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 884204009251 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 884204009252 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 884204009253 FlgN protein; Region: FlgN; pfam05130 884204009254 Killing trait; Region: RebB; pfam11747 884204009255 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 884204009256 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 884204009257 active site 884204009258 NTP binding site [chemical binding]; other site 884204009259 metal binding triad [ion binding]; metal-binding site 884204009260 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 884204009261 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 884204009262 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 884204009263 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 884204009264 putative C-terminal domain interface [polypeptide binding]; other site 884204009265 putative GSH binding site (G-site) [chemical binding]; other site 884204009266 putative dimer interface [polypeptide binding]; other site 884204009267 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 884204009268 putative N-terminal domain interface [polypeptide binding]; other site 884204009269 putative dimer interface [polypeptide binding]; other site 884204009270 putative substrate binding pocket (H-site) [chemical binding]; other site 884204009271 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 884204009272 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 884204009273 putative NAD(P) binding site [chemical binding]; other site 884204009274 active site 884204009275 lytic murein transglycosylase; Provisional; Region: PRK11619 884204009276 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 884204009277 N-acetyl-D-glucosamine binding site [chemical binding]; other site 884204009278 catalytic residue [active] 884204009279 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 884204009280 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 884204009281 MarR family; Region: MarR_2; cl17246 884204009282 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 884204009283 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 884204009284 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 884204009285 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 884204009286 putative active site [active] 884204009287 Protein of unknown function (DUF969); Region: DUF969; pfam06149 884204009288 Predicted membrane protein [Function unknown]; Region: COG3817 884204009289 Protein of unknown function (DUF979); Region: DUF979; pfam06166 884204009290 TraB family; Region: TraB; pfam01963 884204009291 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 884204009292 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204009293 Walker A/P-loop; other site 884204009294 ATP binding site [chemical binding]; other site 884204009295 Q-loop/lid; other site 884204009296 ABC transporter signature motif; other site 884204009297 Walker B; other site 884204009298 D-loop; other site 884204009299 H-loop/switch region; other site 884204009300 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 884204009301 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 884204009302 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204009303 Walker A/P-loop; other site 884204009304 ATP binding site [chemical binding]; other site 884204009305 Q-loop/lid; other site 884204009306 ABC transporter signature motif; other site 884204009307 Walker B; other site 884204009308 D-loop; other site 884204009309 H-loop/switch region; other site 884204009310 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 884204009311 dipeptide transporter; Provisional; Region: PRK10913 884204009312 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 884204009313 dimer interface [polypeptide binding]; other site 884204009314 conserved gate region; other site 884204009315 putative PBP binding loops; other site 884204009316 ABC-ATPase subunit interface; other site 884204009317 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 884204009318 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 884204009319 dimer interface [polypeptide binding]; other site 884204009320 conserved gate region; other site 884204009321 putative PBP binding loops; other site 884204009322 ABC-ATPase subunit interface; other site 884204009323 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 884204009324 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 884204009325 peptide binding site [polypeptide binding]; other site 884204009326 citrate-proton symporter; Provisional; Region: PRK15075 884204009327 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 884204009328 putative substrate translocation pore; other site 884204009329 High potential iron-sulfur protein; Region: HIPIP; pfam01355 884204009330 Predicted dehydrogenase [General function prediction only]; Region: COG0579 884204009331 hydroxyglutarate oxidase; Provisional; Region: PRK11728 884204009332 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 884204009333 Walker A motif; other site 884204009334 ATP binding site [chemical binding]; other site 884204009335 Walker B motif; other site 884204009336 arginine finger; other site 884204009337 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 884204009338 putative catalytic site [active] 884204009339 putative phosphate binding site [ion binding]; other site 884204009340 putative metal binding site [ion binding]; other site 884204009341 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204009342 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 884204009343 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 884204009344 FAD binding pocket [chemical binding]; other site 884204009345 FAD binding motif [chemical binding]; other site 884204009346 phosphate binding motif [ion binding]; other site 884204009347 beta-alpha-beta structure motif; other site 884204009348 NAD binding pocket [chemical binding]; other site 884204009349 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 884204009350 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204009351 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 884204009352 active site 884204009353 phosphorylation site [posttranslational modification] 884204009354 intermolecular recognition site; other site 884204009355 dimerization interface [polypeptide binding]; other site 884204009356 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 884204009357 DNA binding residues [nucleotide binding] 884204009358 dimerization interface [polypeptide binding]; other site 884204009359 amino acid transporter; Region: 2A0306; TIGR00909 884204009360 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 884204009361 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 884204009362 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 884204009363 XdhC Rossmann domain; Region: XdhC_C; pfam13478 884204009364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 884204009365 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 884204009366 flagellar protein FliS; Validated; Region: fliS; PRK05685 884204009367 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 884204009368 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 884204009369 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 884204009370 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 884204009371 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 884204009372 FliG C-terminal domain; Region: FliG_C; pfam01706 884204009373 flagellar assembly protein H; Validated; Region: fliH; PRK05687 884204009374 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 884204009375 Flagellar assembly protein FliH; Region: FliH; pfam02108 884204009376 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 884204009377 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 884204009378 Walker A motif/ATP binding site; other site 884204009379 Walker B motif; other site 884204009380 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 884204009381 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 884204009382 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 884204009383 choline dehydrogenase; Validated; Region: PRK02106 884204009384 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 884204009385 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 884204009386 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204009387 active site 884204009388 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 884204009389 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 884204009390 NAD(P) binding site [chemical binding]; other site 884204009391 catalytic residues [active] 884204009392 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 884204009393 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 884204009394 serine/threonine protein kinase; Provisional; Region: PRK11768 884204009395 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 884204009396 putative substrate translocation pore; other site 884204009397 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 884204009398 EamA-like transporter family; Region: EamA; pfam00892 884204009399 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 884204009400 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 884204009401 active site 884204009402 catalytic tetrad [active] 884204009403 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 884204009404 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 884204009405 S-adenosylmethionine synthetase; Validated; Region: PRK05250 884204009406 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 884204009407 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 884204009408 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 884204009409 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 884204009410 putative acyl-acceptor binding pocket; other site 884204009411 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 884204009412 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 884204009413 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 884204009414 Protein of unknown function, DUF484; Region: DUF484; cl17449 884204009415 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 884204009416 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 884204009417 active site 884204009418 DNA binding site [nucleotide binding] 884204009419 Int/Topo IB signature motif; other site 884204009420 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 884204009421 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 884204009422 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 884204009423 putative RNA binding site [nucleotide binding]; other site 884204009424 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 884204009425 S-adenosylmethionine binding site [chemical binding]; other site 884204009426 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 884204009427 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 884204009428 P-loop, Walker A motif; other site 884204009429 Base recognition motif; other site 884204009430 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 884204009431 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 884204009432 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 884204009433 active site 884204009434 HslU subunit interaction site [polypeptide binding]; other site 884204009435 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 884204009436 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 884204009437 Walker A motif; other site 884204009438 ATP binding site [chemical binding]; other site 884204009439 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 884204009440 Walker B motif; other site 884204009441 arginine finger; other site 884204009442 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 884204009443 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 884204009444 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 884204009445 active site 884204009446 phosphorylation site [posttranslational modification] 884204009447 intermolecular recognition site; other site 884204009448 dimerization interface [polypeptide binding]; other site 884204009449 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204009450 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204009451 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 884204009452 dimer interface [polypeptide binding]; other site 884204009453 phosphorylation site [posttranslational modification] 884204009454 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 884204009455 ATP binding site [chemical binding]; other site 884204009456 Mg2+ binding site [ion binding]; other site 884204009457 G-X-G motif; other site 884204009458 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 884204009459 feedback inhibition sensing region; other site 884204009460 homohexameric interface [polypeptide binding]; other site 884204009461 nucleotide binding site [chemical binding]; other site 884204009462 N-acetyl-L-glutamate binding site [chemical binding]; other site 884204009463 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 884204009464 division inhibitor protein; Provisional; Region: slmA; PRK09480 884204009465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204009466 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 884204009467 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 884204009468 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 884204009469 muropeptide transporter; Reviewed; Region: ampG; PRK11902 884204009470 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 884204009471 putative substrate translocation pore; other site 884204009472 Peptidase family M48; Region: Peptidase_M48; cl12018 884204009473 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 884204009474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204009475 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204009476 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 884204009477 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 884204009478 putative NAD(P) binding site [chemical binding]; other site 884204009479 putative substrate binding site [chemical binding]; other site 884204009480 catalytic Zn binding site [ion binding]; other site 884204009481 structural Zn binding site [ion binding]; other site 884204009482 dimer interface [polypeptide binding]; other site 884204009483 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 884204009484 putative active site [active] 884204009485 putative catalytic site [active] 884204009486 putative DNA binding site [nucleotide binding]; other site 884204009487 putative phosphate binding site [ion binding]; other site 884204009488 metal binding site A [ion binding]; metal-binding site 884204009489 putative AP binding site [nucleotide binding]; other site 884204009490 putative metal binding site B [ion binding]; other site 884204009491 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 884204009492 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 884204009493 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 884204009494 GatB domain; Region: GatB_Yqey; smart00845 884204009495 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 884204009496 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 884204009497 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 884204009498 rod shape-determining protein MreB; Provisional; Region: PRK13927 884204009499 MreB and similar proteins; Region: MreB_like; cd10225 884204009500 nucleotide binding site [chemical binding]; other site 884204009501 Mg binding site [ion binding]; other site 884204009502 putative protofilament interaction site [polypeptide binding]; other site 884204009503 RodZ interaction site [polypeptide binding]; other site 884204009504 rod shape-determining protein MreC; Provisional; Region: PRK13922 884204009505 rod shape-determining protein MreC; Region: MreC; pfam04085 884204009506 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 884204009507 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 884204009508 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 884204009509 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 884204009510 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 884204009511 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 884204009512 Sel1 repeat; Region: Sel1; cl02723 884204009513 Sel1-like repeats; Region: SEL1; smart00671 884204009514 Sel1-like repeats; Region: SEL1; smart00671 884204009515 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 884204009516 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 884204009517 active site 884204009518 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 884204009519 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 884204009520 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 884204009521 Ligand Binding Site [chemical binding]; other site 884204009522 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 884204009523 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 884204009524 Protein of unknown function (DUF497); Region: DUF497; pfam04365 884204009525 portal vertex protein; Provisional; Region: Q; PHA02536 884204009526 Phage portal protein; Region: Phage_portal; pfam04860 884204009527 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 884204009528 stringent starvation protein A; Provisional; Region: sspA; PRK09481 884204009529 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 884204009530 C-terminal domain interface [polypeptide binding]; other site 884204009531 putative GSH binding site (G-site) [chemical binding]; other site 884204009532 dimer interface [polypeptide binding]; other site 884204009533 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 884204009534 dimer interface [polypeptide binding]; other site 884204009535 N-terminal domain interface [polypeptide binding]; other site 884204009536 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 884204009537 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 884204009538 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 884204009539 Qi binding site; other site 884204009540 intrachain domain interface; other site 884204009541 interchain domain interface [polypeptide binding]; other site 884204009542 heme bH binding site [chemical binding]; other site 884204009543 heme bL binding site [chemical binding]; other site 884204009544 Qo binding site; other site 884204009545 interchain domain interface [polypeptide binding]; other site 884204009546 intrachain domain interface; other site 884204009547 Qi binding site; other site 884204009548 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 884204009549 Qo binding site; other site 884204009550 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 884204009551 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 884204009552 [2Fe-2S] cluster binding site [ion binding]; other site 884204009553 Uncharacterized conserved protein [Function unknown]; Region: COG0327 884204009554 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 884204009555 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 884204009556 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 884204009557 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 884204009558 protein binding site [polypeptide binding]; other site 884204009559 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 884204009560 sec-independent translocase; Provisional; Region: tatB; PRK01919 884204009561 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 884204009562 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 884204009563 nucleotide binding site/active site [active] 884204009564 HIT family signature motif; other site 884204009565 catalytic residue [active] 884204009566 Predicted membrane protein [Function unknown]; Region: COG3671 884204009567 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 884204009568 metal binding site [ion binding]; metal-binding site 884204009569 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 884204009570 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 884204009571 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 884204009572 substrate binding site [chemical binding]; other site 884204009573 glutamase interaction surface [polypeptide binding]; other site 884204009574 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 884204009575 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 884204009576 catalytic residues [active] 884204009577 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 884204009578 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 884204009579 putative active site [active] 884204009580 oxyanion strand; other site 884204009581 catalytic triad [active] 884204009582 MarC family integral membrane protein; Region: MarC; cl00919 884204009583 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 884204009584 putative active site pocket [active] 884204009585 4-fold oligomerization interface [polypeptide binding]; other site 884204009586 metal binding residues [ion binding]; metal-binding site 884204009587 3-fold/trimer interface [polypeptide binding]; other site 884204009588 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 884204009589 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 884204009590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204009591 homodimer interface [polypeptide binding]; other site 884204009592 catalytic residue [active] 884204009593 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 884204009594 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 884204009595 NAD binding site [chemical binding]; other site 884204009596 dimerization interface [polypeptide binding]; other site 884204009597 product binding site; other site 884204009598 substrate binding site [chemical binding]; other site 884204009599 zinc binding site [ion binding]; other site 884204009600 catalytic residues [active] 884204009601 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 884204009602 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 884204009603 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 884204009604 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 884204009605 hinge; other site 884204009606 active site 884204009607 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 884204009608 ABC-2 type transporter; Region: ABC2_membrane; cl17235 884204009609 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 884204009610 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 884204009611 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 884204009612 Walker A/P-loop; other site 884204009613 ATP binding site [chemical binding]; other site 884204009614 Q-loop/lid; other site 884204009615 ABC transporter signature motif; other site 884204009616 Walker B; other site 884204009617 D-loop; other site 884204009618 H-loop/switch region; other site 884204009619 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 884204009620 anti sigma factor interaction site; other site 884204009621 regulatory phosphorylation site [posttranslational modification]; other site 884204009622 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 884204009623 VacJ like lipoprotein; Region: VacJ; cl01073 884204009624 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 884204009625 mce related protein; Region: MCE; pfam02470 884204009626 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 884204009627 Permease; Region: Permease; pfam02405 884204009628 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 884204009629 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 884204009630 Walker A/P-loop; other site 884204009631 ATP binding site [chemical binding]; other site 884204009632 Q-loop/lid; other site 884204009633 ABC transporter signature motif; other site 884204009634 Walker B; other site 884204009635 D-loop; other site 884204009636 H-loop/switch region; other site 884204009637 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 884204009638 thiamine phosphate binding site [chemical binding]; other site 884204009639 active site 884204009640 pyrophosphate binding site [ion binding]; other site 884204009641 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 884204009642 ThiS interaction site; other site 884204009643 putative active site [active] 884204009644 tetramer interface [polypeptide binding]; other site 884204009645 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 884204009646 thiS-thiF/thiG interaction site; other site 884204009647 FAD dependent oxidoreductase; Region: DAO; pfam01266 884204009648 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 884204009649 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 884204009650 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 884204009651 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 884204009652 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 884204009653 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 884204009654 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 884204009655 amino acid carrier protein; Region: agcS; TIGR00835 884204009656 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 884204009657 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204009658 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204009659 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 884204009660 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 884204009661 active site 884204009662 dimer interface [polypeptide binding]; other site 884204009663 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 884204009664 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 884204009665 active site 884204009666 FMN binding site [chemical binding]; other site 884204009667 substrate binding site [chemical binding]; other site 884204009668 3Fe-4S cluster binding site [ion binding]; other site 884204009669 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 884204009670 domain interface; other site 884204009671 Transposase IS200 like; Region: Y1_Tnp; cl00848 884204009672 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 884204009673 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 884204009674 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 884204009675 active site 884204009676 catalytic site [active] 884204009677 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 884204009678 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 884204009679 Walker A/P-loop; other site 884204009680 ATP binding site [chemical binding]; other site 884204009681 Q-loop/lid; other site 884204009682 ABC transporter signature motif; other site 884204009683 Walker B; other site 884204009684 D-loop; other site 884204009685 H-loop/switch region; other site 884204009686 TOBE domain; Region: TOBE_2; pfam08402 884204009687 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 884204009688 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 884204009689 dimer interface [polypeptide binding]; other site 884204009690 conserved gate region; other site 884204009691 putative PBP binding loops; other site 884204009692 ABC-ATPase subunit interface; other site 884204009693 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 884204009694 dimer interface [polypeptide binding]; other site 884204009695 conserved gate region; other site 884204009696 putative PBP binding loops; other site 884204009697 ABC-ATPase subunit interface; other site 884204009698 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 884204009699 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 884204009700 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 884204009701 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 884204009702 Zn2+ binding site [ion binding]; other site 884204009703 Mg2+ binding site [ion binding]; other site 884204009704 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 884204009705 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 884204009706 active site 884204009707 dimer interface [polypeptide binding]; other site 884204009708 metal binding site [ion binding]; metal-binding site 884204009709 shikimate kinase; Reviewed; Region: aroK; PRK00131 884204009710 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 884204009711 ADP binding site [chemical binding]; other site 884204009712 magnesium binding site [ion binding]; other site 884204009713 putative shikimate binding site; other site 884204009714 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 884204009715 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204009716 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 884204009717 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 884204009718 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 884204009719 Transglycosylase; Region: Transgly; pfam00912 884204009720 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 884204009721 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 884204009722 putative iron binding site [ion binding]; other site 884204009723 diaminopimelate decarboxylase; Region: lysA; TIGR01048 884204009724 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 884204009725 active site 884204009726 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 884204009727 substrate binding site [chemical binding]; other site 884204009728 catalytic residues [active] 884204009729 dimer interface [polypeptide binding]; other site 884204009730 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 884204009731 TMAO/DMSO reductase; Reviewed; Region: PRK05363 884204009732 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 884204009733 Moco binding site; other site 884204009734 metal coordination site [ion binding]; other site 884204009735 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 884204009736 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 884204009737 ResB-like family; Region: ResB; pfam05140 884204009738 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 884204009739 ResB-like family; Region: ResB; pfam05140 884204009740 Cytochrome c553 [Energy production and conversion]; Region: COG2863 884204009741 Cytochrome c; Region: Cytochrom_C; cl11414 884204009742 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 884204009743 G1 box; other site 884204009744 GTP/Mg2+ binding site [chemical binding]; other site 884204009745 Switch I region; other site 884204009746 G2 box; other site 884204009747 G3 box; other site 884204009748 Switch II region; other site 884204009749 G4 box; other site 884204009750 G5 box; other site 884204009751 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 884204009752 dimer interface [polypeptide binding]; other site 884204009753 active site 884204009754 aspartate-rich active site metal binding site; other site 884204009755 allosteric magnesium binding site [ion binding]; other site 884204009756 Schiff base residues; other site 884204009757 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 884204009758 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 884204009759 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 884204009760 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 884204009761 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 884204009762 DsbD alpha interface [polypeptide binding]; other site 884204009763 catalytic residues [active] 884204009764 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 884204009765 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 884204009766 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 884204009767 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 884204009768 alphaNTD homodimer interface [polypeptide binding]; other site 884204009769 alphaNTD - beta interaction site [polypeptide binding]; other site 884204009770 alphaNTD - beta' interaction site [polypeptide binding]; other site 884204009771 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 884204009772 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 884204009773 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 884204009774 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 884204009775 RNA binding surface [nucleotide binding]; other site 884204009776 30S ribosomal protein S11; Validated; Region: PRK05309 884204009777 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 884204009778 30S ribosomal protein S13; Region: bact_S13; TIGR03631 884204009779 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 884204009780 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 884204009781 rRNA binding site [nucleotide binding]; other site 884204009782 predicted 30S ribosome binding site; other site 884204009783 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 884204009784 SecY translocase; Region: SecY; pfam00344 884204009785 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 884204009786 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 884204009787 23S rRNA binding site [nucleotide binding]; other site 884204009788 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 884204009789 5S rRNA interface [nucleotide binding]; other site 884204009790 L27 interface [polypeptide binding]; other site 884204009791 23S rRNA interface [nucleotide binding]; other site 884204009792 L5 interface [polypeptide binding]; other site 884204009793 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 884204009794 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 884204009795 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 884204009796 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 884204009797 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 884204009798 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 884204009799 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 884204009800 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 884204009801 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 884204009802 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 884204009803 RNA binding site [nucleotide binding]; other site 884204009804 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 884204009805 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 884204009806 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 884204009807 23S rRNA interface [nucleotide binding]; other site 884204009808 putative translocon interaction site; other site 884204009809 signal recognition particle (SRP54) interaction site; other site 884204009810 L23 interface [polypeptide binding]; other site 884204009811 trigger factor interaction site; other site 884204009812 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 884204009813 23S rRNA interface [nucleotide binding]; other site 884204009814 5S rRNA interface [nucleotide binding]; other site 884204009815 putative antibiotic binding site [chemical binding]; other site 884204009816 L25 interface [polypeptide binding]; other site 884204009817 L27 interface [polypeptide binding]; other site 884204009818 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 884204009819 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 884204009820 G-X-X-G motif; other site 884204009821 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 884204009822 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 884204009823 putative translocon binding site; other site 884204009824 protein-rRNA interface [nucleotide binding]; other site 884204009825 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 884204009826 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 884204009827 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 884204009828 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 884204009829 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 884204009830 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 884204009831 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 884204009832 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 884204009833 elongation factor Tu; Reviewed; Region: PRK00049 884204009834 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 884204009835 G1 box; other site 884204009836 GEF interaction site [polypeptide binding]; other site 884204009837 GTP/Mg2+ binding site [chemical binding]; other site 884204009838 Switch I region; other site 884204009839 G2 box; other site 884204009840 G3 box; other site 884204009841 Switch II region; other site 884204009842 G4 box; other site 884204009843 G5 box; other site 884204009844 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 884204009845 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 884204009846 Antibiotic Binding Site [chemical binding]; other site 884204009847 elongation factor G; Reviewed; Region: PRK00007 884204009848 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 884204009849 G1 box; other site 884204009850 putative GEF interaction site [polypeptide binding]; other site 884204009851 GTP/Mg2+ binding site [chemical binding]; other site 884204009852 Switch I region; other site 884204009853 G2 box; other site 884204009854 G3 box; other site 884204009855 Switch II region; other site 884204009856 G4 box; other site 884204009857 G5 box; other site 884204009858 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 884204009859 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 884204009860 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 884204009861 30S ribosomal protein S7; Validated; Region: PRK05302 884204009862 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 884204009863 S17 interaction site [polypeptide binding]; other site 884204009864 S8 interaction site; other site 884204009865 16S rRNA interaction site [nucleotide binding]; other site 884204009866 streptomycin interaction site [chemical binding]; other site 884204009867 23S rRNA interaction site [nucleotide binding]; other site 884204009868 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 884204009869 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 884204009870 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 884204009871 ATP binding site [chemical binding]; other site 884204009872 putative Mg++ binding site [ion binding]; other site 884204009873 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 884204009874 nucleotide binding region [chemical binding]; other site 884204009875 ATP-binding site [chemical binding]; other site 884204009876 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 884204009877 HRDC domain; Region: HRDC; pfam00570 884204009878 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 884204009879 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 884204009880 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 884204009881 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 884204009882 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 884204009883 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 884204009884 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 884204009885 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 884204009886 DNA binding site [nucleotide binding] 884204009887 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 884204009888 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 884204009889 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 884204009890 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 884204009891 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 884204009892 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 884204009893 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 884204009894 RPB3 interaction site [polypeptide binding]; other site 884204009895 RPB1 interaction site [polypeptide binding]; other site 884204009896 RPB11 interaction site [polypeptide binding]; other site 884204009897 RPB10 interaction site [polypeptide binding]; other site 884204009898 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 884204009899 peripheral dimer interface [polypeptide binding]; other site 884204009900 core dimer interface [polypeptide binding]; other site 884204009901 L10 interface [polypeptide binding]; other site 884204009902 L11 interface [polypeptide binding]; other site 884204009903 putative EF-Tu interaction site [polypeptide binding]; other site 884204009904 putative EF-G interaction site [polypeptide binding]; other site 884204009905 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 884204009906 23S rRNA interface [nucleotide binding]; other site 884204009907 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 884204009908 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 884204009909 mRNA/rRNA interface [nucleotide binding]; other site 884204009910 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 884204009911 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 884204009912 23S rRNA interface [nucleotide binding]; other site 884204009913 L7/L12 interface [polypeptide binding]; other site 884204009914 putative thiostrepton binding site; other site 884204009915 L25 interface [polypeptide binding]; other site 884204009916 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 884204009917 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 884204009918 putative homodimer interface [polypeptide binding]; other site 884204009919 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 884204009920 heterodimer interface [polypeptide binding]; other site 884204009921 homodimer interface [polypeptide binding]; other site 884204009922 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 884204009923 elongation factor Tu; Reviewed; Region: PRK00049 884204009924 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 884204009925 G1 box; other site 884204009926 GEF interaction site [polypeptide binding]; other site 884204009927 GTP/Mg2+ binding site [chemical binding]; other site 884204009928 Switch I region; other site 884204009929 G2 box; other site 884204009930 G3 box; other site 884204009931 Switch II region; other site 884204009932 G4 box; other site 884204009933 G5 box; other site 884204009934 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 884204009935 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 884204009936 Antibiotic Binding Site [chemical binding]; other site 884204009937 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 884204009938 active site 884204009939 catalytic triad [active] 884204009940 oxyanion hole [active] 884204009941 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 884204009942 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 884204009943 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 884204009944 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 884204009945 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 884204009946 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 884204009947 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 884204009948 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 884204009949 FAD binding pocket [chemical binding]; other site 884204009950 FAD binding motif [chemical binding]; other site 884204009951 phosphate binding motif [ion binding]; other site 884204009952 beta-alpha-beta structure motif; other site 884204009953 NAD(p) ribose binding residues [chemical binding]; other site 884204009954 NAD binding pocket [chemical binding]; other site 884204009955 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 884204009956 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 884204009957 catalytic loop [active] 884204009958 iron binding site [ion binding]; other site 884204009959 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 884204009960 Protein of unknown function; Region: DUF3658; pfam12395 884204009961 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204009962 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204009963 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 884204009964 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204009965 Coenzyme A binding pocket [chemical binding]; other site 884204009966 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204009967 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 884204009968 putative DNA binding site [nucleotide binding]; other site 884204009969 putative Zn2+ binding site [ion binding]; other site 884204009970 AsnC family; Region: AsnC_trans_reg; pfam01037 884204009971 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 884204009972 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 884204009973 dimer interface [polypeptide binding]; other site 884204009974 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 884204009975 active site 884204009976 Fe binding site [ion binding]; other site 884204009977 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 884204009978 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 884204009979 dimer interface [polypeptide binding]; other site 884204009980 PYR/PP interface [polypeptide binding]; other site 884204009981 TPP binding site [chemical binding]; other site 884204009982 substrate binding site [chemical binding]; other site 884204009983 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 884204009984 TPP-binding site; other site 884204009985 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 884204009986 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 884204009987 Malic enzyme, N-terminal domain; Region: malic; pfam00390 884204009988 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 884204009989 putative NAD(P) binding site [chemical binding]; other site 884204009990 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 884204009991 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204009992 active site 884204009993 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 884204009994 substrate binding site [chemical binding]; other site 884204009995 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 884204009996 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 884204009997 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 884204009998 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 884204009999 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 884204010000 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 884204010001 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 884204010002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 884204010003 Transposase; Region: DDE_Tnp_ISL3; pfam01610 884204010004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204010005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204010006 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 884204010007 dimerization interface [polypeptide binding]; other site 884204010008 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204010009 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 884204010010 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 884204010011 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 884204010012 Uncharacterized conserved protein [Function unknown]; Region: COG1656 884204010013 Protein of unknown function DUF82; Region: DUF82; pfam01927 884204010014 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 884204010015 Spore germination protein; Region: Spore_permease; cl17796 884204010016 Cytochrome c; Region: Cytochrom_C; cl11414 884204010017 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 884204010018 BON domain; Region: BON; pfam04972 884204010019 BON domain; Region: BON; pfam04972 884204010020 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 884204010021 dimer interface [polypeptide binding]; other site 884204010022 active site 884204010023 hypothetical protein; Provisional; Region: PRK14673 884204010024 Predicted methyltransferases [General function prediction only]; Region: COG0313 884204010025 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 884204010026 putative SAM binding site [chemical binding]; other site 884204010027 putative homodimer interface [polypeptide binding]; other site 884204010028 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 884204010029 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 884204010030 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 884204010031 active site 884204010032 catalytic site [active] 884204010033 substrate binding site [chemical binding]; other site 884204010034 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 884204010035 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204010036 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 884204010037 putative DNA binding site [nucleotide binding]; other site 884204010038 putative Zn2+ binding site [ion binding]; other site 884204010039 AsnC family; Region: AsnC_trans_reg; pfam01037 884204010040 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 884204010041 Cation efflux family; Region: Cation_efflux; pfam01545 884204010042 H-NS histone family; Region: Histone_HNS; pfam00816 884204010043 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204010044 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 884204010045 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 884204010046 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 884204010047 dimerization interface [polypeptide binding]; other site 884204010048 ligand binding site [chemical binding]; other site 884204010049 Nitronate monooxygenase; Region: NMO; pfam03060 884204010050 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 884204010051 FMN binding site [chemical binding]; other site 884204010052 substrate binding site [chemical binding]; other site 884204010053 putative catalytic residue [active] 884204010054 Dienelactone hydrolase family; Region: DLH; pfam01738 884204010055 amidase; Provisional; Region: PRK07869 884204010056 Amidase; Region: Amidase; cl11426 884204010057 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 884204010058 FAD binding site [chemical binding]; other site 884204010059 Predicted membrane protein [Function unknown]; Region: COG1950 884204010060 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 884204010061 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 884204010062 homotetramer interface [polypeptide binding]; other site 884204010063 ligand binding site [chemical binding]; other site 884204010064 catalytic site [active] 884204010065 NAD binding site [chemical binding]; other site 884204010066 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 884204010067 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204010068 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 884204010069 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 884204010070 DNA binding residues [nucleotide binding] 884204010071 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 884204010072 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 884204010073 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 884204010074 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 884204010075 FHIPEP family; Region: FHIPEP; pfam00771 884204010076 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 884204010077 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 884204010078 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 884204010079 dimer interface [polypeptide binding]; other site 884204010080 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 884204010081 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 884204010082 chemotaxis regulator CheZ; Provisional; Region: PRK11166 884204010083 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 884204010084 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 884204010085 active site 884204010086 phosphorylation site [posttranslational modification] 884204010087 intermolecular recognition site; other site 884204010088 dimerization interface [polypeptide binding]; other site 884204010089 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 884204010090 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 884204010091 active site 884204010092 phosphorylation site [posttranslational modification] 884204010093 intermolecular recognition site; other site 884204010094 dimerization interface [polypeptide binding]; other site 884204010095 CheB methylesterase; Region: CheB_methylest; pfam01339 884204010096 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 884204010097 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 884204010098 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 884204010099 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 884204010100 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 884204010101 dimer interface [polypeptide binding]; other site 884204010102 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 884204010103 dimerization interface [polypeptide binding]; other site 884204010104 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 884204010105 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204010106 dimer interface [polypeptide binding]; other site 884204010107 putative CheW interface [polypeptide binding]; other site 884204010108 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 884204010109 putative CheA interaction surface; other site 884204010110 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 884204010111 putative binding surface; other site 884204010112 active site 884204010113 CheY binding; Region: CheY-binding; pfam09078 884204010114 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 884204010115 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 884204010116 ATP binding site [chemical binding]; other site 884204010117 Mg2+ binding site [ion binding]; other site 884204010118 G-X-G motif; other site 884204010119 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 884204010120 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 884204010121 Response regulator receiver domain; Region: Response_reg; pfam00072 884204010122 active site 884204010123 phosphorylation site [posttranslational modification] 884204010124 intermolecular recognition site; other site 884204010125 dimerization interface [polypeptide binding]; other site 884204010126 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 884204010127 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 884204010128 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204010129 ligand binding site [chemical binding]; other site 884204010130 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 884204010131 flagellar motor protein MotA; Validated; Region: PRK09110 884204010132 transcriptional activator FlhC; Provisional; Region: PRK12722 884204010133 transcriptional activator FlhD; Provisional; Region: PRK02909 884204010134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204010135 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 884204010136 putative ADP-binding pocket [chemical binding]; other site 884204010137 H-NS histone family; Region: Histone_HNS; pfam00816 884204010138 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204010139 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 884204010140 amphipathic channel; other site 884204010141 Asn-Pro-Ala signature motifs; other site 884204010142 putative hydrolase; Provisional; Region: PRK10976 884204010143 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 884204010144 active site 884204010145 motif I; other site 884204010146 motif II; other site 884204010147 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 884204010148 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 884204010149 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 884204010150 flagellin; Reviewed; Region: PRK08869 884204010151 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 884204010152 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 884204010153 flagellar capping protein; Reviewed; Region: fliD; PRK08032 884204010154 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 884204010155 Tetratricopeptide repeat; Region: TPR_16; pfam13432 884204010156 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 884204010157 TPR motif; other site 884204010158 binding surface 884204010159 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 884204010160 binding surface 884204010161 TPR motif; other site 884204010162 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 884204010163 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 884204010164 TPR motif; other site 884204010165 binding surface 884204010166 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 884204010167 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 884204010168 inhibitor-cofactor binding pocket; inhibition site 884204010169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204010170 catalytic residue [active] 884204010171 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 884204010172 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 884204010173 dimer interface [polypeptide binding]; other site 884204010174 active site 884204010175 CoA binding pocket [chemical binding]; other site 884204010176 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 884204010177 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 884204010178 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 884204010179 dimer interface [polypeptide binding]; other site 884204010180 active site 884204010181 CoA binding pocket [chemical binding]; other site 884204010182 short chain dehydrogenase; Provisional; Region: PRK06500 884204010183 classical (c) SDRs; Region: SDR_c; cd05233 884204010184 NAD(P) binding site [chemical binding]; other site 884204010185 active site 884204010186 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 884204010187 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 884204010188 putative trimer interface [polypeptide binding]; other site 884204010189 putative CoA binding site [chemical binding]; other site 884204010190 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 884204010191 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 884204010192 [2Fe-2S] cluster binding site [ion binding]; other site 884204010193 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 884204010194 alpha subunit interface [polypeptide binding]; other site 884204010195 active site 884204010196 substrate binding site [chemical binding]; other site 884204010197 Fe binding site [ion binding]; other site 884204010198 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204010199 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204010200 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 884204010201 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 884204010202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 884204010203 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 884204010204 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 884204010205 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 884204010206 Cache domain; Region: Cache_1; pfam02743 884204010207 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 884204010208 dimerization interface [polypeptide binding]; other site 884204010209 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 884204010210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204010211 dimer interface [polypeptide binding]; other site 884204010212 putative CheW interface [polypeptide binding]; other site 884204010213 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 884204010214 FAD binding domain; Region: FAD_binding_4; pfam01565 884204010215 Berberine and berberine like; Region: BBE; pfam08031 884204010216 Chitin binding domain; Region: Chitin_bind_3; pfam03067 884204010217 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 884204010218 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 884204010219 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 884204010220 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 884204010221 active site 884204010222 DNA binding site [nucleotide binding] 884204010223 Int/Topo IB signature motif; other site 884204010224 Transposase; Region: HTH_Tnp_1; pfam01527 884204010225 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 884204010226 non-specific DNA binding site [nucleotide binding]; other site 884204010227 salt bridge; other site 884204010228 sequence-specific DNA binding site [nucleotide binding]; other site 884204010229 DNA protecting protein DprA; Region: dprA; TIGR00732 884204010230 portal vertex protein; Provisional; Region: Q; PHA02536 884204010231 Phage portal protein; Region: Phage_portal; pfam04860 884204010232 terminase ATPase subunit; Provisional; Region: P; PHA02535 884204010233 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 884204010234 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 884204010235 capsid-scaffolding protein; Provisional; Region: O; PHA02529 884204010236 capsid protein; Provisional; Region: N; PHA02538 884204010237 terminase endonuclease subunit; Provisional; Region: M; PHA02537 884204010238 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 884204010239 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 884204010240 hypothetical protein; Region: PHA02417 884204010241 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 884204010242 Protein of unknown function (DUF754); Region: DUF754; pfam05449 884204010243 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 884204010244 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 884204010245 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 884204010246 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 884204010247 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 884204010248 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 884204010249 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 884204010250 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 884204010251 baseplate wedge subunit; Provisional; Region: W; PHA02516 884204010252 baseplate assembly protein; Provisional; Region: J; PHA02568 884204010253 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 884204010254 Phage Tail Collar Domain; Region: Collar; pfam07484 884204010255 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 884204010256 major tail sheath protein; Provisional; Region: FI; PHA02560 884204010257 major tail tube protein; Provisional; Region: FII; PHA02600 884204010258 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 884204010259 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 884204010260 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 884204010261 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 884204010262 tail protein; Provisional; Region: D; PHA02561 884204010263 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204010264 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 884204010265 non-specific DNA binding site [nucleotide binding]; other site 884204010266 salt bridge; other site 884204010267 sequence-specific DNA binding site [nucleotide binding]; other site 884204010268 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 884204010269 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 884204010270 DNA primase domain-containing protein; Region: PHA02415 884204010271 CHC2 zinc finger; Region: zf-CHC2; cl17510 884204010272 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 884204010273 active site 884204010274 metal binding site [ion binding]; metal-binding site 884204010275 interdomain interaction site; other site 884204010276 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 884204010277 active site 884204010278 DNA binding site [nucleotide binding] 884204010279 Int/Topo IB signature motif; other site 884204010280 Cytochrome c; Region: Cytochrom_C; cl11414 884204010281 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 884204010282 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 884204010283 Part of AAA domain; Region: AAA_19; pfam13245 884204010284 Family description; Region: UvrD_C_2; pfam13538 884204010285 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 884204010286 oxyanion hole [active] 884204010287 active site 884204010288 catalytic triad [active] 884204010289 putative oxidoreductase; Provisional; Region: PRK11579 884204010290 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 884204010291 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 884204010292 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 884204010293 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 884204010294 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 884204010295 lipoyl attachment site [posttranslational modification]; other site 884204010296 glycine dehydrogenase; Provisional; Region: PRK05367 884204010297 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 884204010298 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204010299 catalytic residue [active] 884204010300 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 884204010301 tetramer interface [polypeptide binding]; other site 884204010302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204010303 catalytic residue [active] 884204010304 Alginate lyase; Region: Alginate_lyase; pfam05426 884204010305 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 884204010306 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 884204010307 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 884204010308 thiamine pyrophosphate protein; Validated; Region: PRK08199 884204010309 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204010310 PYR/PP interface [polypeptide binding]; other site 884204010311 dimer interface [polypeptide binding]; other site 884204010312 TPP binding site [chemical binding]; other site 884204010313 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204010314 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 884204010315 TPP-binding site [chemical binding]; other site 884204010316 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 884204010317 Helix-turn-helix domain; Region: HTH_18; pfam12833 884204010318 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 884204010319 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 884204010320 NAD(P) binding site [chemical binding]; other site 884204010321 catalytic residues [active] 884204010322 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 884204010323 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 884204010324 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 884204010325 ethanolamine permease; Region: 2A0305; TIGR00908 884204010326 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 884204010327 Acyltransferase family; Region: Acyl_transf_3; pfam01757 884204010328 Conserved TM helix; Region: TM_helix; pfam05552 884204010329 Conserved TM helix; Region: TM_helix; pfam05552 884204010330 Conserved TM helix; Region: TM_helix; pfam05552 884204010331 Double zinc ribbon; Region: DZR; pfam12773 884204010332 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 884204010333 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 884204010334 Soluble P-type ATPase [General function prediction only]; Region: COG4087 884204010335 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 884204010336 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 884204010337 DNA binding residues [nucleotide binding] 884204010338 dimer interface [polypeptide binding]; other site 884204010339 putative metal binding site [ion binding]; other site 884204010340 Predicted transcriptional regulators [Transcription]; Region: COG1695 884204010341 Transcriptional regulator PadR-like family; Region: PadR; cl17335 884204010342 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 884204010343 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 884204010344 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 884204010345 substrate binding pocket [chemical binding]; other site 884204010346 membrane-bound complex binding site; other site 884204010347 hinge residues; other site 884204010348 putative aminotransferase; Provisional; Region: PRK12414 884204010349 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 884204010350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204010351 homodimer interface [polypeptide binding]; other site 884204010352 catalytic residue [active] 884204010353 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204010354 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204010355 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 884204010356 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204010357 active site 884204010358 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 884204010359 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204010360 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 884204010361 acyl-activating enzyme (AAE) consensus motif; other site 884204010362 acyl-activating enzyme (AAE) consensus motif; other site 884204010363 putative AMP binding site [chemical binding]; other site 884204010364 putative active site [active] 884204010365 putative CoA binding site [chemical binding]; other site 884204010366 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 884204010367 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 884204010368 dimerization interface [polypeptide binding]; other site 884204010369 ligand binding site [chemical binding]; other site 884204010370 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 884204010371 Predicted transcriptional regulator [Transcription]; Region: COG3905 884204010372 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 884204010373 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 884204010374 Glutamate binding site [chemical binding]; other site 884204010375 NAD binding site [chemical binding]; other site 884204010376 catalytic residues [active] 884204010377 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 884204010378 NAD(P) binding site [chemical binding]; other site 884204010379 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204010380 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 884204010381 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 884204010382 ATP binding site [chemical binding]; other site 884204010383 putative Mg++ binding site [ion binding]; other site 884204010384 nucleotide binding region [chemical binding]; other site 884204010385 helicase superfamily c-terminal domain; Region: HELICc; smart00490 884204010386 ATP-binding site [chemical binding]; other site 884204010387 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 884204010388 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 884204010389 substrate binding site [chemical binding]; other site 884204010390 active site 884204010391 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 884204010392 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 884204010393 substrate binding pocket [chemical binding]; other site 884204010394 membrane-bound complex binding site; other site 884204010395 hinge residues; other site 884204010396 CoA binding domain; Region: CoA_binding; cl17356 884204010397 AMP-binding domain protein; Validated; Region: PRK08315 884204010398 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204010399 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 884204010400 acyl-activating enzyme (AAE) consensus motif; other site 884204010401 putative AMP binding site [chemical binding]; other site 884204010402 putative active site [active] 884204010403 putative CoA binding site [chemical binding]; other site 884204010404 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 884204010405 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 884204010406 gamma subunit interface [polypeptide binding]; other site 884204010407 epsilon subunit interface [polypeptide binding]; other site 884204010408 LBP interface [polypeptide binding]; other site 884204010409 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 884204010410 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 884204010411 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 884204010412 alpha subunit interaction interface [polypeptide binding]; other site 884204010413 Walker A motif; other site 884204010414 ATP binding site [chemical binding]; other site 884204010415 Walker B motif; other site 884204010416 inhibitor binding site; inhibition site 884204010417 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 884204010418 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 884204010419 core domain interface [polypeptide binding]; other site 884204010420 delta subunit interface [polypeptide binding]; other site 884204010421 epsilon subunit interface [polypeptide binding]; other site 884204010422 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 884204010423 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 884204010424 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 884204010425 beta subunit interaction interface [polypeptide binding]; other site 884204010426 Walker A motif; other site 884204010427 ATP binding site [chemical binding]; other site 884204010428 Walker B motif; other site 884204010429 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 884204010430 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 884204010431 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 884204010432 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 884204010433 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 884204010434 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 884204010435 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 884204010436 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 884204010437 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 884204010438 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 884204010439 transmembrane helices; other site 884204010440 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 884204010441 ParB-like nuclease domain; Region: ParBc; pfam02195 884204010442 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 884204010443 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 884204010444 P-loop; other site 884204010445 Magnesium ion binding site [ion binding]; other site 884204010446 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 884204010447 Magnesium ion binding site [ion binding]; other site 884204010448 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 884204010449 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 884204010450 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 884204010451 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 884204010452 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 884204010453 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 884204010454 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 884204010455 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 884204010456 Walker A/P-loop; other site 884204010457 ATP binding site [chemical binding]; other site 884204010458 Q-loop/lid; other site 884204010459 ABC transporter signature motif; other site 884204010460 Walker B; other site 884204010461 D-loop; other site 884204010462 H-loop/switch region; other site 884204010463 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 884204010464 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 884204010465 TM-ABC transporter signature motif; other site 884204010466 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 884204010467 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 884204010468 Walker A/P-loop; other site 884204010469 ATP binding site [chemical binding]; other site 884204010470 Q-loop/lid; other site 884204010471 ABC transporter signature motif; other site 884204010472 Walker B; other site 884204010473 D-loop; other site 884204010474 H-loop/switch region; other site 884204010475 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 884204010476 TM-ABC transporter signature motif; other site 884204010477 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 884204010478 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 884204010479 putative ligand binding site [chemical binding]; other site 884204010480 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 884204010481 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 884204010482 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 884204010483 TM-ABC transporter signature motif; other site 884204010484 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204010485 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 884204010486 TM-ABC transporter signature motif; other site 884204010487 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 884204010488 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 884204010489 putative ligand binding site [chemical binding]; other site 884204010490 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 884204010491 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 884204010492 Walker A/P-loop; other site 884204010493 ATP binding site [chemical binding]; other site 884204010494 Q-loop/lid; other site 884204010495 ABC transporter signature motif; other site 884204010496 Walker B; other site 884204010497 D-loop; other site 884204010498 H-loop/switch region; other site 884204010499 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 884204010500 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 884204010501 Walker A/P-loop; other site 884204010502 ATP binding site [chemical binding]; other site 884204010503 Q-loop/lid; other site 884204010504 ABC transporter signature motif; other site 884204010505 Walker B; other site 884204010506 D-loop; other site 884204010507 H-loop/switch region; other site 884204010508 choline dehydrogenase; Validated; Region: PRK02106 884204010509 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 884204010510 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 884204010511 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 884204010512 tetrameric interface [polypeptide binding]; other site 884204010513 NAD binding site [chemical binding]; other site 884204010514 catalytic residues [active] 884204010515 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204010516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204010517 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 884204010518 dimerization interface [polypeptide binding]; other site 884204010519 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 884204010520 putative active site [active] 884204010521 putative metal binding residues [ion binding]; other site 884204010522 signature motif; other site 884204010523 putative triphosphate binding site [ion binding]; other site 884204010524 dimer interface [polypeptide binding]; other site 884204010525 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204010526 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 884204010527 putative DNA binding site [nucleotide binding]; other site 884204010528 putative Zn2+ binding site [ion binding]; other site 884204010529 AsnC family; Region: AsnC_trans_reg; pfam01037 884204010530 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 884204010531 cofactor binding site; other site 884204010532 metal binding site [ion binding]; metal-binding site 884204010533 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 884204010534 aromatic arch; other site 884204010535 DCoH dimer interaction site [polypeptide binding]; other site 884204010536 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 884204010537 DCoH tetramer interaction site [polypeptide binding]; other site 884204010538 substrate binding site [chemical binding]; other site 884204010539 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 884204010540 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204010541 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 884204010542 active site 884204010543 phosphorylation site [posttranslational modification] 884204010544 intermolecular recognition site; other site 884204010545 dimerization interface [polypeptide binding]; other site 884204010546 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 884204010547 DNA binding site [nucleotide binding] 884204010548 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 884204010549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204010550 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 884204010551 dimer interface [polypeptide binding]; other site 884204010552 phosphorylation site [posttranslational modification] 884204010553 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 884204010554 ATP binding site [chemical binding]; other site 884204010555 Mg2+ binding site [ion binding]; other site 884204010556 G-X-G motif; other site 884204010557 Proteins containing SET domain [General function prediction only]; Region: COG2940 884204010558 SET domain; Region: SET; pfam00856 884204010559 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 884204010560 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 884204010561 active site 884204010562 FMN binding site [chemical binding]; other site 884204010563 substrate binding site [chemical binding]; other site 884204010564 homotetramer interface [polypeptide binding]; other site 884204010565 catalytic residue [active] 884204010566 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 884204010567 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 884204010568 catalytic triad [active] 884204010569 Transcriptional regulators [Transcription]; Region: MarR; COG1846 884204010570 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 884204010571 putative DNA binding site [nucleotide binding]; other site 884204010572 putative Zn2+ binding site [ion binding]; other site 884204010573 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 884204010574 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 884204010575 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 884204010576 active site 884204010577 Int/Topo IB signature motif; other site 884204010578 catalytic residues [active] 884204010579 DNA binding site [nucleotide binding] 884204010580 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 884204010581 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204010582 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 884204010583 non-specific DNA binding site [nucleotide binding]; other site 884204010584 salt bridge; other site 884204010585 sequence-specific DNA binding site [nucleotide binding]; other site 884204010586 Cupin domain; Region: Cupin_2; pfam07883 884204010587 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 884204010588 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 884204010589 substrate-cofactor binding pocket; other site 884204010590 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204010591 catalytic residue [active] 884204010592 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 884204010593 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 884204010594 NAD(P) binding site [chemical binding]; other site 884204010595 Uncharacterized conserved protein [Function unknown]; Region: COG2353 884204010596 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204010597 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204010598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 884204010599 SnoaL-like domain; Region: SnoaL_2; pfam12680 884204010600 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 884204010601 putative active site [active] 884204010602 Zn binding site [ion binding]; other site 884204010603 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 884204010604 tartrate dehydrogenase; Region: TTC; TIGR02089 884204010605 transcriptional activator TtdR; Provisional; Region: PRK09801 884204010606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204010607 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 884204010608 putative effector binding pocket; other site 884204010609 putative dimerization interface [polypeptide binding]; other site 884204010610 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 884204010611 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 884204010612 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 884204010613 putative C-terminal domain interface [polypeptide binding]; other site 884204010614 putative GSH binding site (G-site) [chemical binding]; other site 884204010615 putative dimer interface [polypeptide binding]; other site 884204010616 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 884204010617 putative N-terminal domain interface [polypeptide binding]; other site 884204010618 putative dimer interface [polypeptide binding]; other site 884204010619 putative substrate binding pocket (H-site) [chemical binding]; other site 884204010620 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 884204010621 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 884204010622 nucleophile elbow; other site 884204010623 Patatin phospholipase; Region: DUF3734; pfam12536 884204010624 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 884204010625 classical (c) SDRs; Region: SDR_c; cd05233 884204010626 NAD(P) binding site [chemical binding]; other site 884204010627 active site 884204010628 acetoacetate decarboxylase; Provisional; Region: PRK02265 884204010629 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 884204010630 active site 884204010631 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 884204010632 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 884204010633 FAD binding pocket [chemical binding]; other site 884204010634 FAD binding motif [chemical binding]; other site 884204010635 phosphate binding motif [ion binding]; other site 884204010636 NAD binding pocket [chemical binding]; other site 884204010637 Predicted transcriptional regulators [Transcription]; Region: COG1695 884204010638 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 884204010639 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 884204010640 Cytochrome P450; Region: p450; cl12078 884204010641 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 884204010642 Protein of unknown function (DUF692); Region: DUF692; cl01263 884204010643 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 884204010644 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 884204010645 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 884204010646 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 884204010647 FeS/SAM binding site; other site 884204010648 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204010649 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 884204010650 S-adenosylmethionine binding site [chemical binding]; other site 884204010651 Lysine efflux permease [General function prediction only]; Region: COG1279 884204010652 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 884204010653 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204010654 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 884204010655 dimerization interface [polypeptide binding]; other site 884204010656 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 884204010657 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 884204010658 ligand binding site [chemical binding]; other site 884204010659 flexible hinge region; other site 884204010660 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 884204010661 putative switch regulator; other site 884204010662 non-specific DNA interactions [nucleotide binding]; other site 884204010663 DNA binding site [nucleotide binding] 884204010664 sequence specific DNA binding site [nucleotide binding]; other site 884204010665 putative cAMP binding site [chemical binding]; other site 884204010666 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 884204010667 Ligand Binding Site [chemical binding]; other site 884204010668 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 884204010669 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 884204010670 dimer interface [polypeptide binding]; other site 884204010671 NADP binding site [chemical binding]; other site 884204010672 catalytic residues [active] 884204010673 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 884204010674 Strictosidine synthase; Region: Str_synth; pfam03088 884204010675 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 884204010676 Transcriptional activator HlyU; Region: HlyU; cl02273 884204010677 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 884204010678 serine O-acetyltransferase; Region: cysE; TIGR01172 884204010679 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 884204010680 trimer interface [polypeptide binding]; other site 884204010681 active site 884204010682 substrate binding site [chemical binding]; other site 884204010683 CoA binding site [chemical binding]; other site 884204010684 short chain dehydrogenase; Provisional; Region: PRK09134 884204010685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204010686 NAD(P) binding site [chemical binding]; other site 884204010687 active site 884204010688 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 884204010689 GTP cyclohydrolase I; Provisional; Region: PLN03044 884204010690 active site 884204010691 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204010692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204010693 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 884204010694 substrate binding pocket [chemical binding]; other site 884204010695 dimerization interface [polypeptide binding]; other site 884204010696 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 884204010697 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 884204010698 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 884204010699 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 884204010700 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 884204010701 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 884204010702 tetramer interface [polypeptide binding]; other site 884204010703 active site 884204010704 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 884204010705 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 884204010706 benzoate transport; Region: 2A0115; TIGR00895 884204010707 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 884204010708 putative substrate translocation pore; other site 884204010709 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 884204010710 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204010711 Uncharacterized conserved protein [Function unknown]; Region: COG3391 884204010712 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 884204010713 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 884204010714 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 884204010715 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 884204010716 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 884204010717 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 884204010718 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 884204010719 Chromate transporter; Region: Chromate_transp; pfam02417 884204010720 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 884204010721 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 884204010722 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 884204010723 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 884204010724 RNA polymerase sigma factor; Provisional; Region: PRK11922 884204010725 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204010726 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 884204010727 DNA binding residues [nucleotide binding] 884204010728 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 884204010729 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 884204010730 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 884204010731 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204010732 Walker A/P-loop; other site 884204010733 ATP binding site [chemical binding]; other site 884204010734 Q-loop/lid; other site 884204010735 ABC transporter signature motif; other site 884204010736 Walker B; other site 884204010737 D-loop; other site 884204010738 H-loop/switch region; other site 884204010739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204010740 Walker A/P-loop; other site 884204010741 ATP binding site [chemical binding]; other site 884204010742 Q-loop/lid; other site 884204010743 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 884204010744 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 884204010745 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 884204010746 H-NS histone family; Region: Histone_HNS; pfam00816 884204010747 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204010748 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 884204010749 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 884204010750 putative substrate translocation pore; other site 884204010751 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 884204010752 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 884204010753 dimer interface [polypeptide binding]; other site 884204010754 phosphorylation site [posttranslational modification] 884204010755 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 884204010756 ATP binding site [chemical binding]; other site 884204010757 Mg2+ binding site [ion binding]; other site 884204010758 G-X-G motif; other site 884204010759 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204010760 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 884204010761 active site 884204010762 phosphorylation site [posttranslational modification] 884204010763 intermolecular recognition site; other site 884204010764 dimerization interface [polypeptide binding]; other site 884204010765 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 884204010766 Walker A motif; other site 884204010767 ATP binding site [chemical binding]; other site 884204010768 Walker B motif; other site 884204010769 arginine finger; other site 884204010770 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204010771 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 884204010772 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204010773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204010774 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 884204010775 Phosphoesterase family; Region: Phosphoesterase; pfam04185 884204010776 Domain of unknown function (DUF756); Region: DUF756; pfam05506 884204010777 Domain of unknown function (DUF756); Region: DUF756; pfam05506 884204010778 RNA polymerase sigma factor; Reviewed; Region: PRK12527 884204010779 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 884204010780 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204010781 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 884204010782 dimer interface [polypeptide binding]; other site 884204010783 putative PBP binding loops; other site 884204010784 ABC-ATPase subunit interface; other site 884204010785 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 884204010786 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 884204010787 H-NS histone family; Region: Histone_HNS; pfam00816 884204010788 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204010789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 884204010790 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204010791 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204010792 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 884204010793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 884204010794 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 884204010795 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 884204010796 Uncharacterized conserved protein [Function unknown]; Region: COG4104 884204010797 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 884204010798 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 884204010799 catalytic residues [active] 884204010800 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 884204010801 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 884204010802 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 884204010803 Subunit I/III interface [polypeptide binding]; other site 884204010804 D-pathway; other site 884204010805 Subunit I/VIIc interface [polypeptide binding]; other site 884204010806 Subunit I/IV interface [polypeptide binding]; other site 884204010807 Subunit I/II interface [polypeptide binding]; other site 884204010808 Low-spin heme (heme a) binding site [chemical binding]; other site 884204010809 Subunit I/VIIa interface [polypeptide binding]; other site 884204010810 Subunit I/VIa interface [polypeptide binding]; other site 884204010811 Dimer interface; other site 884204010812 Putative water exit pathway; other site 884204010813 Binuclear center (heme a3/CuB) [ion binding]; other site 884204010814 K-pathway; other site 884204010815 Subunit I/Vb interface [polypeptide binding]; other site 884204010816 Putative proton exit pathway; other site 884204010817 Subunit I/VIb interface; other site 884204010818 Subunit I/VIc interface [polypeptide binding]; other site 884204010819 Electron transfer pathway; other site 884204010820 Subunit I/VIIIb interface [polypeptide binding]; other site 884204010821 Subunit I/VIIb interface [polypeptide binding]; other site 884204010822 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 884204010823 YfaZ precursor; Region: YfaZ; pfam07437 884204010824 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 884204010825 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 884204010826 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 884204010827 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 884204010828 PapC N-terminal domain; Region: PapC_N; pfam13954 884204010829 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 884204010830 PapC C-terminal domain; Region: PapC_C; pfam13953 884204010831 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 884204010832 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 884204010833 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 884204010834 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204010835 ligand binding site [chemical binding]; other site 884204010836 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 884204010837 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 884204010838 Protein of unknown function (DUF877); Region: DUF877; pfam05943 884204010839 Protein of unknown function (DUF796); Region: DUF796; pfam05638 884204010840 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 884204010841 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 884204010842 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 884204010843 hypothetical protein; Provisional; Region: PRK08126 884204010844 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 884204010845 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204010846 ligand binding site [chemical binding]; other site 884204010847 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 884204010848 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 884204010849 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 884204010850 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 884204010851 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204010852 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204010853 PAAR motif; Region: PAAR_motif; pfam05488 884204010854 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 884204010855 RHS Repeat; Region: RHS_repeat; cl11982 884204010856 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 884204010857 RHS Repeat; Region: RHS_repeat; cl11982 884204010858 RHS protein; Region: RHS; pfam03527 884204010859 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 884204010860 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 884204010861 Fimbrial protein; Region: Fimbrial; pfam00419 884204010862 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 884204010863 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 884204010864 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 884204010865 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 884204010866 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 884204010867 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 884204010868 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 884204010869 ImpE protein; Region: ImpE; pfam07024 884204010870 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 884204010871 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 884204010872 Walker A motif; other site 884204010873 ATP binding site [chemical binding]; other site 884204010874 Walker B motif; other site 884204010875 arginine finger; other site 884204010876 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 884204010877 Walker A motif; other site 884204010878 ATP binding site [chemical binding]; other site 884204010879 Walker B motif; other site 884204010880 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 884204010881 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 884204010882 dimer interface [polypeptide binding]; other site 884204010883 phosphorylation site [posttranslational modification] 884204010884 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 884204010885 ATP binding site [chemical binding]; other site 884204010886 Mg2+ binding site [ion binding]; other site 884204010887 G-X-G motif; other site 884204010888 Response regulator receiver domain; Region: Response_reg; pfam00072 884204010889 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 884204010890 active site 884204010891 phosphorylation site [posttranslational modification] 884204010892 intermolecular recognition site; other site 884204010893 dimerization interface [polypeptide binding]; other site 884204010894 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204010895 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 884204010896 active site 884204010897 phosphorylation site [posttranslational modification] 884204010898 intermolecular recognition site; other site 884204010899 dimerization interface [polypeptide binding]; other site 884204010900 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 884204010901 DNA binding residues [nucleotide binding] 884204010902 dimerization interface [polypeptide binding]; other site 884204010903 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 884204010904 PapC N-terminal domain; Region: PapC_N; pfam13954 884204010905 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 884204010906 PapC C-terminal domain; Region: PapC_C; pfam13953 884204010907 putative fimbrial chaperone protein; Provisional; Region: PRK09918 884204010908 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 884204010909 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 884204010910 Protein of unknown function (DUF1120); Region: DUF1120; cl05856 884204010911 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204010912 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 884204010913 active site 884204010914 phosphorylation site [posttranslational modification] 884204010915 intermolecular recognition site; other site 884204010916 dimerization interface [polypeptide binding]; other site 884204010917 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 884204010918 DNA binding residues [nucleotide binding] 884204010919 dimerization interface [polypeptide binding]; other site 884204010920 H-NS histone family; Region: Histone_HNS; pfam00816 884204010921 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204010922 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 884204010923 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 884204010924 putative substrate translocation pore; other site 884204010925 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 884204010926 pyruvate kinase; Provisional; Region: PRK06247 884204010927 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 884204010928 domain interfaces; other site 884204010929 active site 884204010930 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 884204010931 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 884204010932 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 884204010933 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 884204010934 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204010935 acyl-activating enzyme (AAE) consensus motif; other site 884204010936 AMP binding site [chemical binding]; other site 884204010937 active site 884204010938 CoA binding site [chemical binding]; other site 884204010939 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204010940 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 884204010941 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 884204010942 extended (e) SDRs; Region: SDR_e; cd08946 884204010943 NAD(P) binding site [chemical binding]; other site 884204010944 active site 884204010945 substrate binding site [chemical binding]; other site 884204010946 SnoaL-like domain; Region: SnoaL_2; pfam12680 884204010947 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; cl17220 884204010948 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 884204010949 S-adenosylmethionine binding site [chemical binding]; other site 884204010950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204010951 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 884204010952 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 884204010953 substrate binding pocket [chemical binding]; other site 884204010954 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 884204010955 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 884204010956 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204010957 metal binding site [ion binding]; metal-binding site 884204010958 active site 884204010959 I-site; other site 884204010960 mercuric reductase; Validated; Region: PRK06370 884204010961 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204010962 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 884204010963 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 884204010964 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 884204010965 putative ligand binding site [chemical binding]; other site 884204010966 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204010967 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 884204010968 TM-ABC transporter signature motif; other site 884204010969 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 884204010970 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 884204010971 Walker A/P-loop; other site 884204010972 ATP binding site [chemical binding]; other site 884204010973 Q-loop/lid; other site 884204010974 ABC transporter signature motif; other site 884204010975 Walker B; other site 884204010976 D-loop; other site 884204010977 H-loop/switch region; other site 884204010978 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 884204010979 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 884204010980 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 884204010981 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 884204010982 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 884204010983 Domain interface; other site 884204010984 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 884204010985 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 884204010986 Alpha-amylase, C-terminal CBM20 (carbohydrate-binding module, family 20) domain. This domain is found in several bacterial and fungal alpha-amylases including the maltopentaose-forming amylases (G5-amylases). Most alpha-amylases have, in addition to the...; Region: CBM20_alpha_amylase; cd05808 884204010987 starch-binding site 2 [chemical binding]; other site 884204010988 starch-binding site 1 [chemical binding]; other site 884204010989 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 884204010990 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 884204010991 ATP binding site [chemical binding]; other site 884204010992 Mg++ binding site [ion binding]; other site 884204010993 motif III; other site 884204010994 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 884204010995 nucleotide binding region [chemical binding]; other site 884204010996 ATP-binding site [chemical binding]; other site 884204010997 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 884204010998 putative RNA binding site [nucleotide binding]; other site 884204010999 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 884204011000 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204011001 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 884204011002 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204011003 putative substrate translocation pore; other site 884204011004 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 884204011005 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 884204011006 metal binding site [ion binding]; metal-binding site 884204011007 putative dimer interface [polypeptide binding]; other site 884204011008 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 884204011009 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011010 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 884204011011 dimerization interface [polypeptide binding]; other site 884204011012 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 884204011013 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 884204011014 putative di-iron ligands [ion binding]; other site 884204011015 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 884204011016 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 884204011017 substrate binding pocket [chemical binding]; other site 884204011018 membrane-bound complex binding site; other site 884204011019 hinge residues; other site 884204011020 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 884204011021 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 884204011022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204011023 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011024 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 884204011025 dimerization interface [polypeptide binding]; other site 884204011026 short chain dehydrogenase; Provisional; Region: PRK07023 884204011027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204011028 NAD(P) binding site [chemical binding]; other site 884204011029 active site 884204011030 SnoaL-like domain; Region: SnoaL_2; pfam12680 884204011031 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 884204011032 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 884204011033 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 884204011034 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 884204011035 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 884204011036 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 884204011037 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 884204011038 substrate binding pocket [chemical binding]; other site 884204011039 active site 884204011040 iron coordination sites [ion binding]; other site 884204011041 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 884204011042 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 884204011043 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 884204011044 active site 884204011045 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 884204011046 dimer interface [polypeptide binding]; other site 884204011047 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 884204011048 Ligand Binding Site [chemical binding]; other site 884204011049 Molecular Tunnel; other site 884204011050 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 884204011051 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 884204011052 NADP binding site [chemical binding]; other site 884204011053 dimer interface [polypeptide binding]; other site 884204011054 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 884204011055 putative active site [active] 884204011056 putative metal binding site [ion binding]; other site 884204011057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204011058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011059 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 884204011060 putative effector binding pocket; other site 884204011061 dimerization interface [polypeptide binding]; other site 884204011062 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 884204011063 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 884204011064 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 884204011065 hypothetical protein; Provisional; Region: PRK08126 884204011066 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 884204011067 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204011068 ligand binding site [chemical binding]; other site 884204011069 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 884204011070 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 884204011071 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 884204011072 Protein of unknown function (DUF796); Region: DUF796; pfam05638 884204011073 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 884204011074 Protein of unknown function (DUF877); Region: DUF877; pfam05943 884204011075 Protein of unknown function (DUF770); Region: DUF770; pfam05591 884204011076 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 884204011077 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 884204011078 Walker A motif; other site 884204011079 ATP binding site [chemical binding]; other site 884204011080 Walker B motif; other site 884204011081 arginine finger; other site 884204011082 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 884204011083 Walker A motif; other site 884204011084 ATP binding site [chemical binding]; other site 884204011085 Walker B motif; other site 884204011086 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 884204011087 ImpE protein; Region: ImpE; pfam07024 884204011088 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 884204011089 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 884204011090 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 884204011091 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 884204011092 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 884204011093 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 884204011094 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 884204011095 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204011096 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204011097 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 884204011098 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204011099 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 884204011100 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204011101 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204011102 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204011103 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 884204011104 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 884204011105 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204011106 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204011107 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 884204011108 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 884204011109 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 884204011110 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204011111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011112 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 884204011113 putative substrate binding pocket [chemical binding]; other site 884204011114 putative dimerization interface [polypeptide binding]; other site 884204011115 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 884204011116 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 884204011117 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204011118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204011119 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 884204011120 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 884204011121 homodimer interface [polypeptide binding]; other site 884204011122 substrate-cofactor binding pocket; other site 884204011123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011124 catalytic residue [active] 884204011125 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204011126 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 884204011127 dimer interface [polypeptide binding]; other site 884204011128 putative metal binding site [ion binding]; other site 884204011129 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 884204011130 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 884204011131 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 884204011132 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 884204011133 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 884204011134 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 884204011135 ATP-grasp domain; Region: ATP-grasp_4; cl17255 884204011136 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 884204011137 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 884204011138 carboxyltransferase (CT) interaction site; other site 884204011139 biotinylation site [posttranslational modification]; other site 884204011140 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 884204011141 putative active site [active] 884204011142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204011143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011144 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 884204011145 putative substrate binding pocket [chemical binding]; other site 884204011146 dimerization interface [polypeptide binding]; other site 884204011147 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 884204011148 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 884204011149 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 884204011150 active site 884204011151 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 884204011152 TAP-like protein; Region: Abhydrolase_4; pfam08386 884204011153 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 884204011154 S-adenosylmethionine binding site [chemical binding]; other site 884204011155 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 884204011156 dimerization interface [polypeptide binding]; other site 884204011157 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204011158 dimer interface [polypeptide binding]; other site 884204011159 putative CheW interface [polypeptide binding]; other site 884204011160 Propionate catabolism activator; Region: PrpR_N; pfam06506 884204011161 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 884204011162 putative active site [active] 884204011163 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 884204011164 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 884204011165 Walker A motif; other site 884204011166 ATP binding site [chemical binding]; other site 884204011167 Walker B motif; other site 884204011168 arginine finger; other site 884204011169 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 884204011170 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 884204011171 tetramer interface [polypeptide binding]; other site 884204011172 active site 884204011173 Mg2+/Mn2+ binding site [ion binding]; other site 884204011174 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 884204011175 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 884204011176 dimer interface [polypeptide binding]; other site 884204011177 active site 884204011178 citrylCoA binding site [chemical binding]; other site 884204011179 oxalacetate/citrate binding site [chemical binding]; other site 884204011180 coenzyme A binding site [chemical binding]; other site 884204011181 catalytic triad [active] 884204011182 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 884204011183 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 884204011184 substrate binding site [chemical binding]; other site 884204011185 ligand binding site [chemical binding]; other site 884204011186 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 884204011187 substrate binding site [chemical binding]; other site 884204011188 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 884204011189 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 884204011190 CoenzymeA binding site [chemical binding]; other site 884204011191 subunit interaction site [polypeptide binding]; other site 884204011192 PHB binding site; other site 884204011193 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 884204011194 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 884204011195 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 884204011196 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 884204011197 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 884204011198 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 884204011199 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 884204011200 FeS/SAM binding site; other site 884204011201 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 884204011202 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 884204011203 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 884204011204 dimer interface [polypeptide binding]; other site 884204011205 ligand binding site [chemical binding]; other site 884204011206 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204011207 dimer interface [polypeptide binding]; other site 884204011208 putative CheW interface [polypeptide binding]; other site 884204011209 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 884204011210 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204011211 putative substrate translocation pore; other site 884204011212 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 884204011213 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 884204011214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011215 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 884204011216 dimerization interface [polypeptide binding]; other site 884204011217 substrate binding pocket [chemical binding]; other site 884204011218 dimerization interface [polypeptide binding]; other site 884204011219 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 884204011220 putative active cleft [active] 884204011221 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 884204011222 MgtC family; Region: MgtC; pfam02308 884204011223 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 884204011224 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204011225 Coenzyme A binding pocket [chemical binding]; other site 884204011226 Protein of unknown function (DUF4087); Region: DUF4087; pfam13316 884204011227 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 884204011228 Uncharacterized conserved protein [Function unknown]; Region: COG5361 884204011229 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 884204011230 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 884204011231 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 884204011232 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 884204011233 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 884204011234 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 884204011235 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 884204011236 Sulfatase; Region: Sulfatase; cl17466 884204011237 Sulfatase; Region: Sulfatase; cl17466 884204011238 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204011239 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 884204011240 active site 884204011241 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 884204011242 active site lid residues [active] 884204011243 substrate binding pocket [chemical binding]; other site 884204011244 catalytic residues [active] 884204011245 substrate-Mg2+ binding site; other site 884204011246 aspartate-rich region 1; other site 884204011247 aspartate-rich region 2; other site 884204011248 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 884204011249 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 884204011250 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 884204011251 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 884204011252 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 884204011253 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 884204011254 tetramer interface [polypeptide binding]; other site 884204011255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011256 catalytic residue [active] 884204011257 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 884204011258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011259 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 884204011260 putative dimerization interface [polypeptide binding]; other site 884204011261 Transglycosylase; Region: Transgly; pfam00912 884204011262 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 884204011263 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 884204011264 Predicted membrane protein [Function unknown]; Region: COG2860 884204011265 UPF0126 domain; Region: UPF0126; pfam03458 884204011266 UPF0126 domain; Region: UPF0126; pfam03458 884204011267 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 884204011268 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 884204011269 Walker A/P-loop; other site 884204011270 ATP binding site [chemical binding]; other site 884204011271 Q-loop/lid; other site 884204011272 ABC transporter signature motif; other site 884204011273 Walker B; other site 884204011274 D-loop; other site 884204011275 H-loop/switch region; other site 884204011276 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 884204011277 putative PBP binding regions; other site 884204011278 ABC-ATPase subunit interface; other site 884204011279 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 884204011280 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 884204011281 intersubunit interface [polypeptide binding]; other site 884204011282 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 884204011283 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 884204011284 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 884204011285 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 884204011286 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 884204011287 N-terminal plug; other site 884204011288 ligand-binding site [chemical binding]; other site 884204011289 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 884204011290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011291 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 884204011292 dimerization interface [polypeptide binding]; other site 884204011293 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 884204011294 dimer interface [polypeptide binding]; other site 884204011295 conserved gate region; other site 884204011296 putative PBP binding loops; other site 884204011297 ABC-ATPase subunit interface; other site 884204011298 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 884204011299 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 884204011300 Walker A/P-loop; other site 884204011301 ATP binding site [chemical binding]; other site 884204011302 Q-loop/lid; other site 884204011303 ABC transporter signature motif; other site 884204011304 Walker B; other site 884204011305 D-loop; other site 884204011306 H-loop/switch region; other site 884204011307 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 884204011308 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 884204011309 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 884204011310 dimer interface [polypeptide binding]; other site 884204011311 conserved gate region; other site 884204011312 putative PBP binding loops; other site 884204011313 ABC-ATPase subunit interface; other site 884204011314 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 884204011315 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204011316 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 884204011317 trimer interface [polypeptide binding]; other site 884204011318 eyelet of channel; other site 884204011319 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 884204011320 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 884204011321 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 884204011322 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 884204011323 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 884204011324 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 884204011325 Walker A/P-loop; other site 884204011326 ATP binding site [chemical binding]; other site 884204011327 Q-loop/lid; other site 884204011328 ABC transporter signature motif; other site 884204011329 Walker B; other site 884204011330 D-loop; other site 884204011331 H-loop/switch region; other site 884204011332 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 884204011333 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204011334 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 884204011335 TM-ABC transporter signature motif; other site 884204011336 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 884204011337 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 884204011338 putative ligand binding site [chemical binding]; other site 884204011339 short chain dehydrogenase; Provisional; Region: PRK06841 884204011340 classical (c) SDRs; Region: SDR_c; cd05233 884204011341 NAD(P) binding site [chemical binding]; other site 884204011342 active site 884204011343 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 884204011344 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 884204011345 putative NAD(P) binding site [chemical binding]; other site 884204011346 catalytic Zn binding site [ion binding]; other site 884204011347 structural Zn binding site [ion binding]; other site 884204011348 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 884204011349 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 884204011350 DAK2 domain; Region: Dak2; cl03685 884204011351 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 884204011352 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204011353 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 884204011354 trimer interface [polypeptide binding]; other site 884204011355 eyelet of channel; other site 884204011356 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 884204011357 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 884204011358 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 884204011359 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 884204011360 active site 884204011361 Zn binding site [ion binding]; other site 884204011362 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 884204011363 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 884204011364 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 884204011365 substrate binding pocket [chemical binding]; other site 884204011366 membrane-bound complex binding site; other site 884204011367 hinge residues; other site 884204011368 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 884204011369 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011370 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 884204011371 dimerization interface [polypeptide binding]; other site 884204011372 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 884204011373 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 884204011374 metal binding site [ion binding]; metal-binding site 884204011375 putative dimer interface [polypeptide binding]; other site 884204011376 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204011377 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 884204011378 putative substrate translocation pore; other site 884204011379 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 884204011380 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204011381 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 884204011382 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 884204011383 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 884204011384 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204011385 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 884204011386 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 884204011387 dimer interface [polypeptide binding]; other site 884204011388 active site 884204011389 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 884204011390 PAS domain; Region: PAS_9; pfam13426 884204011391 putative active site [active] 884204011392 heme pocket [chemical binding]; other site 884204011393 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204011394 dimer interface [polypeptide binding]; other site 884204011395 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 884204011396 putative CheW interface [polypeptide binding]; other site 884204011397 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 884204011398 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 884204011399 S-adenosylmethionine binding site [chemical binding]; other site 884204011400 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 884204011401 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 884204011402 hydrophobic ligand binding site; other site 884204011403 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 884204011404 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 884204011405 [2Fe-2S] cluster binding site [ion binding]; other site 884204011406 succinic semialdehyde dehydrogenase; Region: PLN02278 884204011407 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 884204011408 tetramerization interface [polypeptide binding]; other site 884204011409 NAD(P) binding site [chemical binding]; other site 884204011410 catalytic residues [active] 884204011411 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 884204011412 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 884204011413 inhibitor-cofactor binding pocket; inhibition site 884204011414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011415 catalytic residue [active] 884204011416 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 884204011417 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204011418 DNA-binding site [nucleotide binding]; DNA binding site 884204011419 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 884204011420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011421 homodimer interface [polypeptide binding]; other site 884204011422 catalytic residue [active] 884204011423 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 884204011424 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 884204011425 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204011426 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204011427 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 884204011428 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 884204011429 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 884204011430 EamA-like transporter family; Region: EamA; cl17759 884204011431 selenophosphate synthetase; Provisional; Region: PRK00943 884204011432 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 884204011433 dimerization interface [polypeptide binding]; other site 884204011434 putative ATP binding site [chemical binding]; other site 884204011435 Purine nucleoside permease (NUP); Region: NUP; pfam06516 884204011436 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 884204011437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204011438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011439 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 884204011440 putative effector binding pocket; other site 884204011441 putative dimerization interface [polypeptide binding]; other site 884204011442 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 884204011443 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 884204011444 substrate binding pocket [chemical binding]; other site 884204011445 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 884204011446 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204011447 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204011448 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 884204011449 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204011450 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 884204011451 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 884204011452 Transcriptional regulators [Transcription]; Region: GntR; COG1802 884204011453 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204011454 DNA-binding site [nucleotide binding]; DNA binding site 884204011455 FCD domain; Region: FCD; pfam07729 884204011456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204011457 Coenzyme A binding pocket [chemical binding]; other site 884204011458 Membrane transport protein; Region: Mem_trans; cl09117 884204011459 acyl-CoA synthetase; Validated; Region: PRK05850 884204011460 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 884204011461 acyl-activating enzyme (AAE) consensus motif; other site 884204011462 active site 884204011463 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 884204011464 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 884204011465 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 884204011466 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204011467 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 884204011468 acyl-activating enzyme (AAE) consensus motif; other site 884204011469 AMP binding site [chemical binding]; other site 884204011470 active site 884204011471 CoA binding site [chemical binding]; other site 884204011472 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 884204011473 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 884204011474 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 884204011475 catalytic residue [active] 884204011476 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 884204011477 Ketol-acid reductoisomerase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvC; COG0059 884204011478 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 884204011479 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 884204011480 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204011481 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 884204011482 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 884204011483 active site 884204011484 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 884204011485 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 884204011486 putative NADP binding site [chemical binding]; other site 884204011487 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 884204011488 active site 884204011489 Methyltransferase domain; Region: Methyltransf_12; pfam08242 884204011490 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204011491 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204011492 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204011493 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 884204011494 active site 884204011495 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204011496 Condensation domain; Region: Condensation; pfam00668 884204011497 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204011498 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204011499 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204011500 thioester reductase domain; Region: Thioester-redct; TIGR01746 884204011501 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 884204011502 putative NAD(P) binding site [chemical binding]; other site 884204011503 active site 884204011504 putative substrate binding site [chemical binding]; other site 884204011505 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 884204011506 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 884204011507 tetrameric interface [polypeptide binding]; other site 884204011508 NAD binding site [chemical binding]; other site 884204011509 catalytic residues [active] 884204011510 substrate binding site [chemical binding]; other site 884204011511 hypothetical protein; Provisional; Region: PRK07036 884204011512 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 884204011513 inhibitor-cofactor binding pocket; inhibition site 884204011514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011515 catalytic residue [active] 884204011516 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 884204011517 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 884204011518 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 884204011519 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 884204011520 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204011521 AMP-binding enzyme; Region: AMP-binding; pfam00501 884204011522 acyl-activating enzyme (AAE) consensus motif; other site 884204011523 AMP binding site [chemical binding]; other site 884204011524 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204011525 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 884204011526 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 884204011527 active site 884204011528 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 884204011529 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 884204011530 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 884204011531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204011532 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 884204011533 NAD(P) binding site [chemical binding]; other site 884204011534 active site 884204011535 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204011536 Autoinducer binding domain; Region: Autoind_bind; pfam03472 884204011537 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 884204011538 DNA binding residues [nucleotide binding] 884204011539 dimerization interface [polypeptide binding]; other site 884204011540 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 884204011541 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 884204011542 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 884204011543 active site 884204011544 non-prolyl cis peptide bond; other site 884204011545 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 884204011546 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 884204011547 Walker A/P-loop; other site 884204011548 ATP binding site [chemical binding]; other site 884204011549 Q-loop/lid; other site 884204011550 ABC transporter signature motif; other site 884204011551 Walker B; other site 884204011552 D-loop; other site 884204011553 H-loop/switch region; other site 884204011554 NIL domain; Region: NIL; pfam09383 884204011555 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 884204011556 dimer interface [polypeptide binding]; other site 884204011557 conserved gate region; other site 884204011558 ABC-ATPase subunit interface; other site 884204011559 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 884204011560 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 884204011561 Flavin binding site [chemical binding]; other site 884204011562 transcriptional regulator NanR; Provisional; Region: PRK03837 884204011563 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204011564 DNA-binding site [nucleotide binding]; DNA binding site 884204011565 FCD domain; Region: FCD; pfam07729 884204011566 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 884204011567 Cysteine-rich domain; Region: CCG; pfam02754 884204011568 Cysteine-rich domain; Region: CCG; pfam02754 884204011569 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 884204011570 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 884204011571 4Fe-4S binding domain; Region: Fer4; pfam00037 884204011572 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 884204011573 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 884204011574 glycolate transporter; Provisional; Region: PRK09695 884204011575 L-lactate permease; Region: Lactate_perm; cl00701 884204011576 Predicted membrane protein [Function unknown]; Region: COG2259 884204011577 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 884204011578 putative substrate translocation pore; other site 884204011579 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 884204011580 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204011581 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 884204011582 putative substrate translocation pore; other site 884204011583 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 884204011584 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 884204011585 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 884204011586 dimer interface [polypeptide binding]; other site 884204011587 NADP binding site [chemical binding]; other site 884204011588 catalytic residues [active] 884204011589 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 884204011590 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 884204011591 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 884204011592 inhibitor site; inhibition site 884204011593 active site 884204011594 dimer interface [polypeptide binding]; other site 884204011595 catalytic residue [active] 884204011596 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 884204011597 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 884204011598 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 884204011599 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 884204011600 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 884204011601 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 884204011602 PAS fold; Region: PAS_4; pfam08448 884204011603 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 884204011604 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204011605 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 884204011606 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 884204011607 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 884204011608 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 884204011609 dimer interface [polypeptide binding]; other site 884204011610 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 884204011611 active site 884204011612 Fe binding site [ion binding]; other site 884204011613 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 884204011614 Dehydroquinase class II; Region: DHquinase_II; pfam01220 884204011615 active site 884204011616 trimer interface [polypeptide binding]; other site 884204011617 dimer interface [polypeptide binding]; other site 884204011618 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 884204011619 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 884204011620 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 884204011621 shikimate binding site; other site 884204011622 NAD(P) binding site [chemical binding]; other site 884204011623 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 884204011624 D-galactonate transporter; Region: 2A0114; TIGR00893 884204011625 putative substrate translocation pore; other site 884204011626 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 884204011627 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 884204011628 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204011629 catalytic residue [active] 884204011630 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 884204011631 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 884204011632 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 884204011633 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204011634 Walker A/P-loop; other site 884204011635 ATP binding site [chemical binding]; other site 884204011636 Q-loop/lid; other site 884204011637 ABC transporter signature motif; other site 884204011638 Walker B; other site 884204011639 D-loop; other site 884204011640 H-loop/switch region; other site 884204011641 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 884204011642 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 884204011643 dimer interface [polypeptide binding]; other site 884204011644 conserved gate region; other site 884204011645 putative PBP binding loops; other site 884204011646 ABC-ATPase subunit interface; other site 884204011647 2-aminoethylphosphonate ABC transport system, membrane component PhnV; Region: PhnV; TIGR03255 884204011648 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 884204011649 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 884204011650 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 884204011651 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 884204011652 NAD(P) binding site [chemical binding]; other site 884204011653 catalytic residues [active] 884204011654 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 884204011655 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 884204011656 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 884204011657 DNA binding residues [nucleotide binding] 884204011658 dimer interface [polypeptide binding]; other site 884204011659 copper binding site [ion binding]; other site 884204011660 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 884204011661 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 884204011662 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 884204011663 active site 884204011664 catalytic tetrad [active] 884204011665 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 884204011666 classical (c) SDRs; Region: SDR_c; cd05233 884204011667 NAD(P) binding site [chemical binding]; other site 884204011668 active site 884204011669 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 884204011670 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 884204011671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011672 homodimer interface [polypeptide binding]; other site 884204011673 catalytic residue [active] 884204011674 excinuclease ABC subunit B; Provisional; Region: PRK05298 884204011675 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 884204011676 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 884204011677 ATP-binding site [chemical binding]; other site 884204011678 ATP binding site [chemical binding]; other site 884204011679 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 884204011680 nucleotide binding region [chemical binding]; other site 884204011681 ATP-binding site [chemical binding]; other site 884204011682 Ultra-violet resistance protein B; Region: UvrB; pfam12344 884204011683 UvrB/uvrC motif; Region: UVR; pfam02151 884204011684 Fe2+ transport protein; Region: Iron_transport; pfam10634 884204011685 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 884204011686 Iron permease FTR1 family; Region: FTR1; cl00475 884204011687 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 884204011688 4Fe-4S binding domain; Region: Fer4_5; pfam12801 884204011689 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 884204011690 Hemin uptake protein hemP; Region: hemP; pfam10636 884204011691 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 884204011692 putative hydrophobic ligand binding site [chemical binding]; other site 884204011693 Pirin-related protein [General function prediction only]; Region: COG1741 884204011694 Pirin; Region: Pirin; pfam02678 884204011695 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 884204011696 LysR family transcriptional regulator; Provisional; Region: PRK14997 884204011697 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011698 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 884204011699 putative effector binding pocket; other site 884204011700 putative dimerization interface [polypeptide binding]; other site 884204011701 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 884204011702 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 884204011703 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 884204011704 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 884204011705 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 884204011706 glutamate racemase; Provisional; Region: PRK00865 884204011707 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 884204011708 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 884204011709 heme binding site [chemical binding]; other site 884204011710 ferroxidase pore; other site 884204011711 ferroxidase diiron center [ion binding]; other site 884204011712 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 884204011713 Fumarase C-terminus; Region: Fumerase_C; pfam05683 884204011714 hypothetical protein; Provisional; Region: PRK05208 884204011715 EamA-like transporter family; Region: EamA; pfam00892 884204011716 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 884204011717 EamA-like transporter family; Region: EamA; pfam00892 884204011718 acetyl-CoA synthetase; Provisional; Region: PRK00174 884204011719 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 884204011720 active site 884204011721 CoA binding site [chemical binding]; other site 884204011722 acyl-activating enzyme (AAE) consensus motif; other site 884204011723 AMP binding site [chemical binding]; other site 884204011724 acetate binding site [chemical binding]; other site 884204011725 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 884204011726 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 884204011727 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 884204011728 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 884204011729 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 884204011730 Resolvase, N terminal domain; Region: Resolvase; pfam00239 884204011731 catalytic residues [active] 884204011732 catalytic nucleophile [active] 884204011733 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 884204011734 Transposase; Region: HTH_Tnp_1; pfam01527 884204011735 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 884204011736 HTH-like domain; Region: HTH_21; pfam13276 884204011737 Integrase core domain; Region: rve; pfam00665 884204011738 Integrase core domain; Region: rve_3; pfam13683 884204011739 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 884204011740 Methyltransferase domain; Region: Methyltransf_26; pfam13659 884204011741 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204011742 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 884204011743 non-specific DNA binding site [nucleotide binding]; other site 884204011744 salt bridge; other site 884204011745 sequence-specific DNA binding site [nucleotide binding]; other site 884204011746 Phage replication protein CRI; Region: Phage_CRI; pfam05144 884204011747 Transposase; Region: HTH_Tnp_1; pfam01527 884204011748 HTH-like domain; Region: HTH_21; pfam13276 884204011749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 884204011750 Integrase core domain; Region: rve; pfam00665 884204011751 Integrase core domain; Region: rve_3; pfam13683 884204011752 Domain of unknown function (DUF927); Region: DUF927; pfam06048 884204011753 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 884204011754 active site 884204011755 Int/Topo IB signature motif; other site 884204011756 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 884204011757 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 884204011758 Int/Topo IB signature motif; other site 884204011759 Transposase; Region: HTH_Tnp_1; pfam01527 884204011760 HTH-like domain; Region: HTH_21; pfam13276 884204011761 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 884204011762 Integrase core domain; Region: rve; pfam00665 884204011763 Integrase core domain; Region: rve_3; pfam13683 884204011764 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 884204011765 HTH-like domain; Region: HTH_21; pfam13276 884204011766 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 884204011767 Integrase core domain; Region: rve; pfam00665 884204011768 Integrase core domain; Region: rve_3; pfam13683 884204011769 Transposase; Region: HTH_Tnp_1; pfam01527 884204011770 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 884204011771 DNA-binding interface [nucleotide binding]; DNA binding site 884204011772 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 884204011773 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 884204011774 active site 884204011775 metal binding site [ion binding]; metal-binding site 884204011776 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 884204011777 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 884204011778 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 884204011779 putative active site [active] 884204011780 catalytic site [active] 884204011781 putative metal binding site [ion binding]; other site 884204011782 Integrase core domain; Region: rve_3; pfam13683 884204011783 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 884204011784 Bacterial Ig-like domain; Region: Big_5; pfam13205 884204011785 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 884204011786 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204011787 PYR/PP interface [polypeptide binding]; other site 884204011788 dimer interface [polypeptide binding]; other site 884204011789 TPP binding site [chemical binding]; other site 884204011790 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204011791 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 884204011792 TPP-binding site [chemical binding]; other site 884204011793 dimer interface [polypeptide binding]; other site 884204011794 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 884204011795 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 884204011796 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 884204011797 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 884204011798 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 884204011799 SLBB domain; Region: SLBB; pfam10531 884204011800 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 884204011801 Chain length determinant protein; Region: Wzz; pfam02706 884204011802 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 884204011803 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 884204011804 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 884204011805 substrate binding site; other site 884204011806 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 884204011807 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 884204011808 NAD binding site [chemical binding]; other site 884204011809 homotetramer interface [polypeptide binding]; other site 884204011810 homodimer interface [polypeptide binding]; other site 884204011811 substrate binding site [chemical binding]; other site 884204011812 active site 884204011813 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 884204011814 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 884204011815 inhibitor-cofactor binding pocket; inhibition site 884204011816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011817 catalytic residue [active] 884204011818 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 884204011819 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 884204011820 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 884204011821 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 884204011822 inhibitor-cofactor binding pocket; inhibition site 884204011823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011824 catalytic residue [active] 884204011825 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 884204011826 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 884204011827 active site 884204011828 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 884204011829 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 884204011830 putative active site [active] 884204011831 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 884204011832 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 884204011833 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 884204011834 putative active site [active] 884204011835 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 884204011836 trimer interface [polypeptide binding]; other site 884204011837 active site 884204011838 substrate binding site [chemical binding]; other site 884204011839 CoA binding site [chemical binding]; other site 884204011840 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 884204011841 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 884204011842 active site 884204011843 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 884204011844 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204011845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011846 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 884204011847 putative effector binding pocket; other site 884204011848 dimerization interface [polypeptide binding]; other site 884204011849 Pirin-related protein [General function prediction only]; Region: COG1741 884204011850 Pirin; Region: Pirin; pfam02678 884204011851 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 884204011852 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 884204011853 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 884204011854 ligand binding site [chemical binding]; other site 884204011855 flexible hinge region; other site 884204011856 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 884204011857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204011858 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204011859 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204011860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204011861 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204011862 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 884204011863 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 884204011864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204011865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204011866 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 884204011867 putative effector binding pocket; other site 884204011868 dimerization interface [polypeptide binding]; other site 884204011869 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 884204011870 Isochorismatase family; Region: Isochorismatase; pfam00857 884204011871 catalytic triad [active] 884204011872 dimer interface [polypeptide binding]; other site 884204011873 conserved cis-peptide bond; other site 884204011874 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 884204011875 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 884204011876 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 884204011877 active site 884204011878 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 884204011879 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204011880 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204011881 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 884204011882 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 884204011883 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 884204011884 NAD binding site [chemical binding]; other site 884204011885 active site 884204011886 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 884204011887 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 884204011888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204011889 DNA-binding site [nucleotide binding]; DNA binding site 884204011890 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 884204011891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011892 homodimer interface [polypeptide binding]; other site 884204011893 catalytic residue [active] 884204011894 Putative amidotransferase; Region: DUF4066; pfam13278 884204011895 conserved cys residue [active] 884204011896 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 884204011897 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 884204011898 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 884204011899 hypothetical protein; Provisional; Region: PRK08609 884204011900 active site 884204011901 primer binding site [nucleotide binding]; other site 884204011902 NTP binding site [chemical binding]; other site 884204011903 metal binding triad [ion binding]; metal-binding site 884204011904 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 884204011905 active site 884204011906 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 884204011907 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 884204011908 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 884204011909 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 884204011910 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 884204011911 CopC domain; Region: CopC; pfam04234 884204011912 Copper resistance protein D; Region: CopD; pfam05425 884204011913 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 884204011914 HAMP domain; Region: HAMP; pfam00672 884204011915 dimerization interface [polypeptide binding]; other site 884204011916 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 884204011917 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204011918 dimer interface [polypeptide binding]; other site 884204011919 putative CheW interface [polypeptide binding]; other site 884204011920 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 884204011921 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 884204011922 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 884204011923 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 884204011924 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 884204011925 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 884204011926 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 884204011927 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 884204011928 dimer interface [polypeptide binding]; other site 884204011929 conserved gate region; other site 884204011930 putative PBP binding loops; other site 884204011931 ABC-ATPase subunit interface; other site 884204011932 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 884204011933 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 884204011934 dimer interface [polypeptide binding]; other site 884204011935 conserved gate region; other site 884204011936 putative PBP binding loops; other site 884204011937 ABC-ATPase subunit interface; other site 884204011938 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 884204011939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204011940 Walker A/P-loop; other site 884204011941 ATP binding site [chemical binding]; other site 884204011942 Q-loop/lid; other site 884204011943 ABC transporter signature motif; other site 884204011944 Walker B; other site 884204011945 D-loop; other site 884204011946 H-loop/switch region; other site 884204011947 TOBE domain; Region: TOBE_2; pfam08402 884204011948 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 884204011949 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 884204011950 putative aminotransferase; Validated; Region: PRK07480 884204011951 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 884204011952 inhibitor-cofactor binding pocket; inhibition site 884204011953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204011954 catalytic residue [active] 884204011955 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 884204011956 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 884204011957 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 884204011958 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 884204011959 catalytic triad [active] 884204011960 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 884204011961 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 884204011962 non-specific DNA binding site [nucleotide binding]; other site 884204011963 salt bridge; other site 884204011964 sequence-specific DNA binding site [nucleotide binding]; other site 884204011965 Cupin domain; Region: Cupin_2; pfam07883 884204011966 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 884204011967 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 884204011968 NAD(P) binding site [chemical binding]; other site 884204011969 catalytic residues [active] 884204011970 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 884204011971 agmatinase; Region: agmatinase; TIGR01230 884204011972 oligomer interface [polypeptide binding]; other site 884204011973 putative active site [active] 884204011974 Mn binding site [ion binding]; other site 884204011975 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 884204011976 oligomerisation interface [polypeptide binding]; other site 884204011977 mobile loop; other site 884204011978 roof hairpin; other site 884204011979 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 884204011980 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 884204011981 ring oligomerisation interface [polypeptide binding]; other site 884204011982 ATP/Mg binding site [chemical binding]; other site 884204011983 stacking interactions; other site 884204011984 hinge regions; other site 884204011985 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 884204011986 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 884204011987 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 884204011988 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 884204011989 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 884204011990 active site 884204011991 dimer interface [polypeptide binding]; other site 884204011992 effector binding site; other site 884204011993 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204011994 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 884204011995 acyl-activating enzyme (AAE) consensus motif; other site 884204011996 AMP binding site [chemical binding]; other site 884204011997 active site 884204011998 CoA binding site [chemical binding]; other site 884204011999 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 884204012000 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 884204012001 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 884204012002 active site 884204012003 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 884204012004 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 884204012005 dimer interface [polypeptide binding]; other site 884204012006 active site 884204012007 CoA binding pocket [chemical binding]; other site 884204012008 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 884204012009 acyl-CoA synthetase; Validated; Region: PRK05850 884204012010 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 884204012011 acyl-activating enzyme (AAE) consensus motif; other site 884204012012 active site 884204012013 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204012014 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 884204012015 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 884204012016 active site 884204012017 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204012018 MAPEG family; Region: MAPEG; cl09190 884204012019 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 884204012020 putative hydrophobic ligand binding site [chemical binding]; other site 884204012021 Integrase core domain; Region: rve_3; pfam13683 884204012022 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 884204012023 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 884204012024 catalytic residue [active] 884204012025 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 884204012026 catalytic residues [active] 884204012027 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204012028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204012029 peroxiredoxin; Region: AhpC; TIGR03137 884204012030 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 884204012031 dimer interface [polypeptide binding]; other site 884204012032 decamer (pentamer of dimers) interface [polypeptide binding]; other site 884204012033 catalytic triad [active] 884204012034 peroxidatic and resolving cysteines [active] 884204012035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3397 884204012036 Chitin binding domain; Region: Chitin_bind_3; pfam03067 884204012037 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 884204012038 putative FMN binding site [chemical binding]; other site 884204012039 Uncharacterized conserved protein [Function unknown]; Region: COG2308 884204012040 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 884204012041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 884204012042 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 884204012043 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 884204012044 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 884204012045 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 884204012046 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 884204012047 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 884204012048 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 884204012049 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 884204012050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 884204012051 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 884204012052 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 884204012053 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 884204012054 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 884204012055 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204012056 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 884204012057 DNA-binding site [nucleotide binding]; DNA binding site 884204012058 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 884204012059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204012060 homodimer interface [polypeptide binding]; other site 884204012061 catalytic residue [active] 884204012062 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 884204012063 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 884204012064 putative substrate translocation pore; other site 884204012065 Predicted membrane protein [Function unknown]; Region: COG1289 884204012066 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 884204012067 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 884204012068 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 884204012069 conserved cys residue [active] 884204012070 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204012071 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 884204012072 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 884204012073 conserved cys residue [active] 884204012074 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 884204012075 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204012076 catalytic residue [active] 884204012077 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204012078 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 884204012079 PYR/PP interface [polypeptide binding]; other site 884204012080 dimer interface [polypeptide binding]; other site 884204012081 TPP binding site [chemical binding]; other site 884204012082 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 884204012083 TPP-binding site [chemical binding]; other site 884204012084 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 884204012085 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 884204012086 tetramer interface [polypeptide binding]; other site 884204012087 active site 884204012088 Mg2+/Mn2+ binding site [ion binding]; other site 884204012089 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 884204012090 active site 884204012091 metal-binding site 884204012092 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 884204012093 active site 884204012094 metal-binding site 884204012095 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 884204012096 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 884204012097 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 884204012098 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 884204012099 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 884204012100 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 884204012101 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 884204012102 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 884204012103 type VI secretion protein, VC_A0107 family; Region: VI_chp_5; TIGR03358 884204012104 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 884204012105 Protein of unknown function (DUF877); Region: DUF877; pfam05943 884204012106 Protein of unknown function (DUF796); Region: DUF796; pfam05638 884204012107 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 884204012108 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 884204012109 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 884204012110 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 884204012111 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 884204012112 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 884204012113 Walker A motif; other site 884204012114 ATP binding site [chemical binding]; other site 884204012115 Walker B motif; other site 884204012116 arginine finger; other site 884204012117 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 884204012118 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 884204012119 Walker A motif; other site 884204012120 ATP binding site [chemical binding]; other site 884204012121 Walker B motif; other site 884204012122 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 884204012123 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 884204012124 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204012125 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204012126 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 884204012127 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204012128 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204012129 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 884204012130 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 884204012131 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 884204012132 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 884204012133 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 884204012134 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204012135 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 884204012136 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 884204012137 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 884204012138 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 884204012139 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 884204012140 hypothetical protein; Provisional; Region: PRK14693 884204012141 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 884204012142 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204012143 ligand binding site [chemical binding]; other site 884204012144 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 884204012145 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 884204012146 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 884204012147 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 884204012148 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 884204012149 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 884204012150 active site 884204012151 TDP-binding site; other site 884204012152 acceptor substrate-binding pocket; other site 884204012153 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 884204012154 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 884204012155 putative substrate translocation pore; other site 884204012156 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 884204012157 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 884204012158 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 884204012159 Ligand binding site; other site 884204012160 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204012161 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 884204012162 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204012163 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204012164 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 884204012165 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 884204012166 substrate binding [chemical binding]; other site 884204012167 active site 884204012168 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 884204012169 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 884204012170 active site 884204012171 Transcriptional regulators [Transcription]; Region: PurR; COG1609 884204012172 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 884204012173 DNA binding site [nucleotide binding] 884204012174 domain linker motif; other site 884204012175 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 884204012176 ligand binding site [chemical binding]; other site 884204012177 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 884204012178 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 884204012179 NAD binding site [chemical binding]; other site 884204012180 catalytic Zn binding site [ion binding]; other site 884204012181 structural Zn binding site [ion binding]; other site 884204012182 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 884204012183 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 884204012184 conserved cys residue [active] 884204012185 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204012186 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 884204012187 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 884204012188 dimer interface [polypeptide binding]; other site 884204012189 active site 884204012190 glycine-pyridoxal phosphate binding site [chemical binding]; other site 884204012191 folate binding site [chemical binding]; other site 884204012192 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 884204012193 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 884204012194 active site 884204012195 dimer interface [polypeptide binding]; other site 884204012196 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 884204012197 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 884204012198 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 884204012199 putative active site [active] 884204012200 putative FMN binding site [chemical binding]; other site 884204012201 putative substrate binding site [chemical binding]; other site 884204012202 putative catalytic residue [active] 884204012203 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 884204012204 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 884204012205 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 884204012206 Cysteine-rich domain; Region: CCG; pfam02754 884204012207 Cysteine-rich domain; Region: CCG; pfam02754 884204012208 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 884204012209 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 884204012210 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 884204012211 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 884204012212 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 884204012213 [2Fe-2S] cluster binding site [ion binding]; other site 884204012214 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 884204012215 putative alpha subunit interface [polypeptide binding]; other site 884204012216 putative active site [active] 884204012217 putative substrate binding site [chemical binding]; other site 884204012218 Fe binding site [ion binding]; other site 884204012219 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 884204012220 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 884204012221 FAD binding pocket [chemical binding]; other site 884204012222 FAD binding motif [chemical binding]; other site 884204012223 phosphate binding motif [ion binding]; other site 884204012224 beta-alpha-beta structure motif; other site 884204012225 NAD binding pocket [chemical binding]; other site 884204012226 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 884204012227 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 884204012228 catalytic loop [active] 884204012229 iron binding site [ion binding]; other site 884204012230 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 884204012231 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 884204012232 Amino acid permease; Region: AA_permease_2; pfam13520 884204012233 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 884204012234 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 884204012235 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 884204012236 putative active site [active] 884204012237 putative substrate binding site [chemical binding]; other site 884204012238 putative cosubstrate binding site; other site 884204012239 catalytic site [active] 884204012240 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 884204012241 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204012242 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 884204012243 substrate binding pocket [chemical binding]; other site 884204012244 dimerization interface [polypeptide binding]; other site 884204012245 choline-sulfatase; Region: chol_sulfatase; TIGR03417 884204012246 Sulfatase; Region: Sulfatase; cl17466 884204012247 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 884204012248 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 884204012249 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 884204012250 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204012251 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 884204012252 trimer interface [polypeptide binding]; other site 884204012253 eyelet of channel; other site 884204012254 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 884204012255 Peptidase family M28; Region: Peptidase_M28; pfam04389 884204012256 active site 884204012257 metal binding site [ion binding]; metal-binding site 884204012258 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 884204012259 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 884204012260 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 884204012261 Zn binding site [ion binding]; other site 884204012262 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 884204012263 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 884204012264 conserved cys residue [active] 884204012265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204012266 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 884204012267 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 884204012268 Uncharacterized conserved protein [Function unknown]; Region: COG3246 884204012269 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 884204012270 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 884204012271 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 884204012272 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 884204012273 active site 884204012274 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 884204012275 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 884204012276 short chain dehydrogenase; Provisional; Region: PRK06197 884204012277 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 884204012278 putative NAD(P) binding site [chemical binding]; other site 884204012279 active site 884204012280 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 884204012281 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 884204012282 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 884204012283 dimerization interface [polypeptide binding]; other site 884204012284 ligand binding site [chemical binding]; other site 884204012285 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204012286 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 884204012287 TM-ABC transporter signature motif; other site 884204012288 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 884204012289 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 884204012290 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 884204012291 TM-ABC transporter signature motif; other site 884204012292 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 884204012293 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 884204012294 Walker A/P-loop; other site 884204012295 ATP binding site [chemical binding]; other site 884204012296 Q-loop/lid; other site 884204012297 ABC transporter signature motif; other site 884204012298 Walker B; other site 884204012299 D-loop; other site 884204012300 H-loop/switch region; other site 884204012301 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 884204012302 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 884204012303 Walker A/P-loop; other site 884204012304 ATP binding site [chemical binding]; other site 884204012305 Q-loop/lid; other site 884204012306 ABC transporter signature motif; other site 884204012307 Walker B; other site 884204012308 D-loop; other site 884204012309 H-loop/switch region; other site 884204012310 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 884204012311 Peptidase family M23; Region: Peptidase_M23; pfam01551 884204012312 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 884204012313 salicylate biosynthesis isochorismate synthase; Validated; Region: PRK07054 884204012314 chorismate binding enzyme; Region: Chorismate_bind; cl10555 884204012315 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 884204012316 Thioesterase domain; Region: Thioesterase; pfam00975 884204012317 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 884204012318 nucleophilic elbow; other site 884204012319 catalytic triad; other site 884204012320 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 884204012321 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 884204012322 acyl-activating enzyme (AAE) consensus motif; other site 884204012323 active site 884204012324 AMP binding site [chemical binding]; other site 884204012325 substrate binding site [chemical binding]; other site 884204012326 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 884204012327 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204012328 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 884204012329 Condensation domain; Region: Condensation; pfam00668 884204012330 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204012331 Nonribosomal peptide synthase; Region: NRPS; pfam08415 884204012332 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 884204012333 acyl-activating enzyme (AAE) consensus motif; other site 884204012334 AMP binding site [chemical binding]; other site 884204012335 Methyltransferase domain; Region: Methyltransf_12; pfam08242 884204012336 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204012337 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204012338 Condensation domain; Region: Condensation; pfam00668 884204012339 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204012340 Nonribosomal peptide synthase; Region: NRPS; pfam08415 884204012341 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 884204012342 acyl-activating enzyme (AAE) consensus motif; other site 884204012343 AMP binding site [chemical binding]; other site 884204012344 Methyltransferase domain; Region: Methyltransf_12; pfam08242 884204012345 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204012346 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 884204012347 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 884204012348 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 884204012349 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204012350 Walker A/P-loop; other site 884204012351 ATP binding site [chemical binding]; other site 884204012352 Q-loop/lid; other site 884204012353 ABC transporter signature motif; other site 884204012354 Walker B; other site 884204012355 D-loop; other site 884204012356 H-loop/switch region; other site 884204012357 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 884204012358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204012359 Walker A/P-loop; other site 884204012360 ATP binding site [chemical binding]; other site 884204012361 Q-loop/lid; other site 884204012362 ABC transporter signature motif; other site 884204012363 Walker B; other site 884204012364 D-loop; other site 884204012365 H-loop/switch region; other site 884204012366 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 884204012367 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 884204012368 N-terminal plug; other site 884204012369 ligand-binding site [chemical binding]; other site 884204012370 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 884204012371 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 884204012372 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 884204012373 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 884204012374 catalytic loop [active] 884204012375 iron binding site [ion binding]; other site 884204012376 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 884204012377 GAF domain; Region: GAF; pfam01590 884204012378 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 884204012379 Walker A motif; other site 884204012380 ATP binding site [chemical binding]; other site 884204012381 Walker B motif; other site 884204012382 arginine finger; other site 884204012383 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204012384 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 884204012385 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 884204012386 Transposase; Region: HTH_Tnp_1; pfam01527 884204012387 HTH-like domain; Region: HTH_21; pfam13276 884204012388 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 884204012389 Integrase core domain; Region: rve; pfam00665 884204012390 Integrase core domain; Region: rve_3; pfam13683 884204012391 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 884204012392 TIGR02594 family protein; Region: TIGR02594 884204012393 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 884204012394 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 884204012395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204012396 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 884204012397 dimerization interface [polypeptide binding]; other site 884204012398 substrate binding pocket [chemical binding]; other site 884204012399 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 884204012400 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 884204012401 NAD(P) binding site [chemical binding]; other site 884204012402 catalytic residues [active] 884204012403 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 884204012404 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 884204012405 active site 884204012406 iron coordination sites [ion binding]; other site 884204012407 substrate binding pocket [chemical binding]; other site 884204012408 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204012409 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 884204012410 PYR/PP interface [polypeptide binding]; other site 884204012411 dimer interface [polypeptide binding]; other site 884204012412 TPP binding site [chemical binding]; other site 884204012413 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 884204012414 TPP-binding site; other site 884204012415 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 884204012416 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 884204012417 tetramer interface [polypeptide binding]; other site 884204012418 active site 884204012419 Mg2+/Mn2+ binding site [ion binding]; other site 884204012420 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 884204012421 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 884204012422 short chain dehydrogenase; Validated; Region: PRK05855 884204012423 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204012424 classical (c) SDRs; Region: SDR_c; cd05233 884204012425 NAD(P) binding site [chemical binding]; other site 884204012426 active site 884204012427 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 884204012428 active site 884204012429 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 884204012430 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 884204012431 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 884204012432 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 884204012433 active site 884204012434 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 884204012435 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 884204012436 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204012437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204012438 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204012439 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204012440 active site 884204012441 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 884204012442 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 884204012443 active site 884204012444 acyl-activating enzyme (AAE) consensus motif; other site 884204012445 putative CoA binding site [chemical binding]; other site 884204012446 AMP binding site [chemical binding]; other site 884204012447 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 884204012448 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 884204012449 tetrameric interface [polypeptide binding]; other site 884204012450 NAD binding site [chemical binding]; other site 884204012451 catalytic residues [active] 884204012452 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 884204012453 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 884204012454 enoyl-CoA hydratase; Provisional; Region: PRK09076 884204012455 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 884204012456 substrate binding site [chemical binding]; other site 884204012457 oxyanion hole (OAH) forming residues; other site 884204012458 trimer interface [polypeptide binding]; other site 884204012459 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 884204012460 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 884204012461 substrate binding site [chemical binding]; other site 884204012462 oxyanion hole (OAH) forming residues; other site 884204012463 trimer interface [polypeptide binding]; other site 884204012464 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 884204012465 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204012466 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 884204012467 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 884204012468 Walker A/P-loop; other site 884204012469 ATP binding site [chemical binding]; other site 884204012470 Q-loop/lid; other site 884204012471 ABC transporter signature motif; other site 884204012472 Walker B; other site 884204012473 D-loop; other site 884204012474 H-loop/switch region; other site 884204012475 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 884204012476 FtsX-like permease family; Region: FtsX; pfam02687 884204012477 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 884204012478 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204012479 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204012480 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 884204012481 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 884204012482 active site 884204012483 dimer interface [polypeptide binding]; other site 884204012484 non-prolyl cis peptide bond; other site 884204012485 insertion regions; other site 884204012486 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 884204012487 B1 nucleotide binding pocket [chemical binding]; other site 884204012488 B2 nucleotide binding pocket [chemical binding]; other site 884204012489 CAS motifs; other site 884204012490 active site 884204012491 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 884204012492 glutaminase; Provisional; Region: PRK00971 884204012493 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 884204012494 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 884204012495 active site 884204012496 phosphorylation site [posttranslational modification] 884204012497 intermolecular recognition site; other site 884204012498 dimerization interface [polypeptide binding]; other site 884204012499 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 884204012500 DNA binding site [nucleotide binding] 884204012501 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 884204012502 dimer interface [polypeptide binding]; other site 884204012503 phosphorylation site [posttranslational modification] 884204012504 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 884204012505 ATP binding site [chemical binding]; other site 884204012506 Mg2+ binding site [ion binding]; other site 884204012507 G-X-G motif; other site 884204012508 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 884204012509 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 884204012510 active site 884204012511 nucleophile elbow; other site 884204012512 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 884204012513 Surface antigen; Region: Bac_surface_Ag; pfam01103 884204012514 rod shape-determining protein MreB; Provisional; Region: PRK13930 884204012515 MreB and similar proteins; Region: MreB_like; cd10225 884204012516 nucleotide binding site [chemical binding]; other site 884204012517 Mg binding site [ion binding]; other site 884204012518 putative protofilament interaction site [polypeptide binding]; other site 884204012519 RodZ interaction site [polypeptide binding]; other site 884204012520 Cytochrome c; Region: Cytochrom_C; cl11414 884204012521 HD domain; Region: HD_3; pfam13023 884204012522 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 884204012523 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 884204012524 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 884204012525 substrate binding pocket [chemical binding]; other site 884204012526 aspartate-rich region 1; other site 884204012527 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 884204012528 putative dimer interface [polypeptide binding]; other site 884204012529 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204012530 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 884204012531 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 884204012532 C-terminal domain interface [polypeptide binding]; other site 884204012533 GSH binding site (G-site) [chemical binding]; other site 884204012534 dimer interface [polypeptide binding]; other site 884204012535 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 884204012536 N-terminal domain interface [polypeptide binding]; other site 884204012537 dimer interface [polypeptide binding]; other site 884204012538 substrate binding pocket (H-site) [chemical binding]; other site 884204012539 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 884204012540 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 884204012541 dimer interface [polypeptide binding]; other site 884204012542 phosphorylation site [posttranslational modification] 884204012543 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 884204012544 ATP binding site [chemical binding]; other site 884204012545 Mg2+ binding site [ion binding]; other site 884204012546 G-X-G motif; other site 884204012547 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 884204012548 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 884204012549 active site 884204012550 phosphorylation site [posttranslational modification] 884204012551 intermolecular recognition site; other site 884204012552 dimerization interface [polypeptide binding]; other site 884204012553 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 884204012554 DNA binding site [nucleotide binding] 884204012555 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 884204012556 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 884204012557 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 884204012558 putative active site [active] 884204012559 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 884204012560 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 884204012561 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 884204012562 active site residue [active] 884204012563 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 884204012564 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 884204012565 conserved cys residue [active] 884204012566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204012567 hypothetical protein; Provisional; Region: PRK07907 884204012568 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 884204012569 metal binding site [ion binding]; metal-binding site 884204012570 putative dimer interface [polypeptide binding]; other site 884204012571 TfoX N-terminal domain; Region: TfoX_N; pfam04993 884204012572 NnrU protein; Region: NnrU; pfam07298 884204012573 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 884204012574 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 884204012575 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 884204012576 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 884204012577 Integrase core domain; Region: rve_3; pfam13683 884204012578 VirK protein; Region: VirK; pfam06903 884204012579 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 884204012580 Integrase core domain; Region: rve_3; pfam13683 884204012581 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 884204012582 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204012583 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 884204012584 active site 884204012585 intermolecular recognition site; other site 884204012586 dimerization interface [polypeptide binding]; other site 884204012587 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 884204012588 DNA binding site [nucleotide binding] 884204012589 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 884204012590 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 884204012591 active site 884204012592 iron coordination sites [ion binding]; other site 884204012593 substrate binding pocket [chemical binding]; other site 884204012594 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 884204012595 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 884204012596 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 884204012597 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 884204012598 putative substrate translocation pore; other site 884204012599 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 884204012600 Trehalase; Region: Trehalase; cl17346 884204012601 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 884204012602 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 884204012603 Subunit I/III interface [polypeptide binding]; other site 884204012604 Autoinducer binding domain; Region: Autoind_bind; pfam03472 884204012605 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204012606 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 884204012607 DNA binding residues [nucleotide binding] 884204012608 dimerization interface [polypeptide binding]; other site 884204012609 Autoinducer binding domain; Region: Autoind_bind; pfam03472 884204012610 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 884204012611 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 884204012612 active site 884204012613 dimer interface [polypeptide binding]; other site 884204012614 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 884204012615 Ligand Binding Site [chemical binding]; other site 884204012616 Molecular Tunnel; other site 884204012617 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 884204012618 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 884204012619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204012620 DNA binding site [nucleotide binding] 884204012621 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 884204012622 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 884204012623 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 884204012624 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 884204012625 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 884204012626 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 884204012627 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 884204012628 catalytic loop [active] 884204012629 iron binding site [ion binding]; other site 884204012630 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 884204012631 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 884204012632 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 884204012633 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204012634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204012635 SnoaL-like domain; Region: SnoaL_2; pfam12680 884204012636 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 884204012637 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 884204012638 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 884204012639 Flavin binding site [chemical binding]; other site 884204012640 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 884204012641 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204012642 active site 884204012643 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 884204012644 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 884204012645 active site 884204012646 non-prolyl cis peptide bond; other site 884204012647 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 884204012648 dimerization interface [polypeptide binding]; other site 884204012649 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 884204012650 dimer interface [polypeptide binding]; other site 884204012651 phosphorylation site [posttranslational modification] 884204012652 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 884204012653 ATP binding site [chemical binding]; other site 884204012654 Mg2+ binding site [ion binding]; other site 884204012655 G-X-G motif; other site 884204012656 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204012657 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 884204012658 active site 884204012659 phosphorylation site [posttranslational modification] 884204012660 intermolecular recognition site; other site 884204012661 dimerization interface [polypeptide binding]; other site 884204012662 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 884204012663 DNA binding site [nucleotide binding] 884204012664 MltA-interacting protein MipA; Region: MipA; cl01504 884204012665 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 884204012666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204012667 NAD(P) binding site [chemical binding]; other site 884204012668 active site 884204012669 MarR family; Region: MarR_2; cl17246 884204012670 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 884204012671 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 884204012672 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 884204012673 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 884204012674 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 884204012675 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 884204012676 NAD binding site [chemical binding]; other site 884204012677 catalytic residues [active] 884204012678 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 884204012679 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 884204012680 putative active site [active] 884204012681 putative metal binding site [ion binding]; other site 884204012682 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 884204012683 putative substrate binding pocket [chemical binding]; other site 884204012684 trimer interface [polypeptide binding]; other site 884204012685 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 884204012686 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 884204012687 Helix-turn-helix domain; Region: HTH_18; pfam12833 884204012688 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204012689 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 884204012690 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 884204012691 NAD(P) binding site [chemical binding]; other site 884204012692 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204012693 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 884204012694 trimer interface [polypeptide binding]; other site 884204012695 eyelet of channel; other site 884204012696 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 884204012697 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 884204012698 Walker A/P-loop; other site 884204012699 ATP binding site [chemical binding]; other site 884204012700 Q-loop/lid; other site 884204012701 ABC transporter signature motif; other site 884204012702 Walker B; other site 884204012703 D-loop; other site 884204012704 H-loop/switch region; other site 884204012705 TOBE domain; Region: TOBE_2; pfam08402 884204012706 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 884204012707 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 884204012708 dimer interface [polypeptide binding]; other site 884204012709 conserved gate region; other site 884204012710 ABC-ATPase subunit interface; other site 884204012711 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 884204012712 dimer interface [polypeptide binding]; other site 884204012713 conserved gate region; other site 884204012714 putative PBP binding loops; other site 884204012715 ABC-ATPase subunit interface; other site 884204012716 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 884204012717 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 884204012718 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 884204012719 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 884204012720 active site 884204012721 phosphorylation site [posttranslational modification] 884204012722 intermolecular recognition site; other site 884204012723 dimerization interface [polypeptide binding]; other site 884204012724 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 884204012725 DNA binding site [nucleotide binding] 884204012726 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 884204012727 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 884204012728 dimer interface [polypeptide binding]; other site 884204012729 phosphorylation site [posttranslational modification] 884204012730 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 884204012731 ATP binding site [chemical binding]; other site 884204012732 Mg2+ binding site [ion binding]; other site 884204012733 G-X-G motif; other site 884204012734 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 884204012735 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 884204012736 MOSC domain; Region: MOSC; pfam03473 884204012737 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204012738 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 884204012739 trimer interface [polypeptide binding]; other site 884204012740 eyelet of channel; other site 884204012741 enoyl-CoA hydratase; Validated; Region: PRK08139 884204012742 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 884204012743 substrate binding site [chemical binding]; other site 884204012744 oxyanion hole (OAH) forming residues; other site 884204012745 trimer interface [polypeptide binding]; other site 884204012746 alanine racemase; Reviewed; Region: PRK13340 884204012747 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 884204012748 active site 884204012749 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 884204012750 substrate binding site [chemical binding]; other site 884204012751 catalytic residues [active] 884204012752 dimer interface [polypeptide binding]; other site 884204012753 Domain of unknown function (DUF427); Region: DUF427; pfam04248 884204012754 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 884204012755 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 884204012756 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 884204012757 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 884204012758 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 884204012759 Esterase/lipase [General function prediction only]; Region: COG1647 884204012760 MASE1; Region: MASE1; pfam05231 884204012761 PAS fold; Region: PAS_3; pfam08447 884204012762 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204012763 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204012764 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 884204012765 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 884204012766 potential catalytic triad [active] 884204012767 conserved cys residue [active] 884204012768 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 884204012769 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 884204012770 active site 884204012771 FMN binding site [chemical binding]; other site 884204012772 substrate binding site [chemical binding]; other site 884204012773 homotetramer interface [polypeptide binding]; other site 884204012774 catalytic residue [active] 884204012775 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 884204012776 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 884204012777 NAD binding site [chemical binding]; other site 884204012778 homotetramer interface [polypeptide binding]; other site 884204012779 homodimer interface [polypeptide binding]; other site 884204012780 substrate binding site [chemical binding]; other site 884204012781 active site 884204012782 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 884204012783 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 884204012784 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 884204012785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204012786 NAD(P) binding site [chemical binding]; other site 884204012787 active site 884204012788 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 884204012789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204012790 DNA-binding site [nucleotide binding]; DNA binding site 884204012791 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 884204012792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204012793 homodimer interface [polypeptide binding]; other site 884204012794 catalytic residue [active] 884204012795 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 884204012796 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 884204012797 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 884204012798 ligand binding site [chemical binding]; other site 884204012799 flexible hinge region; other site 884204012800 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 884204012801 acyl-CoA synthetase; Validated; Region: PRK08162 884204012802 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 884204012803 acyl-activating enzyme (AAE) consensus motif; other site 884204012804 putative active site [active] 884204012805 AMP binding site [chemical binding]; other site 884204012806 putative CoA binding site [chemical binding]; other site 884204012807 Cache domain; Region: Cache_1; pfam02743 884204012808 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204012809 dimer interface [polypeptide binding]; other site 884204012810 putative CheW interface [polypeptide binding]; other site 884204012811 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 884204012812 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 884204012813 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 884204012814 DXD motif; other site 884204012815 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 884204012816 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204012817 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204012818 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 884204012819 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204012820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204012821 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 884204012822 dimerization interface [polypeptide binding]; other site 884204012823 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 884204012824 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 884204012825 inhibitor-cofactor binding pocket; inhibition site 884204012826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204012827 catalytic residue [active] 884204012828 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 884204012829 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 884204012830 tetrameric interface [polypeptide binding]; other site 884204012831 NAD binding site [chemical binding]; other site 884204012832 catalytic residues [active] 884204012833 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; cl17722 884204012834 Secretory lipase; Region: LIP; pfam03583 884204012835 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 884204012836 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204012837 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 884204012838 trimer interface [polypeptide binding]; other site 884204012839 eyelet of channel; other site 884204012840 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 884204012841 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 884204012842 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204012843 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 884204012844 DNA binding residues [nucleotide binding] 884204012845 dimerization interface [polypeptide binding]; other site 884204012846 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 884204012847 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 884204012848 homodimer interface [polypeptide binding]; other site 884204012849 homotetramer interface [polypeptide binding]; other site 884204012850 active site pocket [active] 884204012851 cleavage site 884204012852 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 884204012853 Fusaric acid resistance protein family; Region: FUSC; pfam04632 884204012854 transcriptional regulator; Provisional; Region: PRK10632 884204012855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204012856 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 884204012857 putative effector binding pocket; other site 884204012858 dimerization interface [polypeptide binding]; other site 884204012859 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 884204012860 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204012861 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 884204012862 trimer interface [polypeptide binding]; other site 884204012863 eyelet of channel; other site 884204012864 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 884204012865 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204012866 cytosine permease; Provisional; Region: codB; PRK11017 884204012867 Na binding site [ion binding]; other site 884204012868 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 884204012869 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 884204012870 cytosine deaminase; Provisional; Region: PRK09230 884204012871 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 884204012872 active site 884204012873 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 884204012874 putative substrate translocation pore; other site 884204012875 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 884204012876 short chain dehydrogenase; Provisional; Region: PRK12829 884204012877 classical (c) SDRs; Region: SDR_c; cd05233 884204012878 NAD(P) binding site [chemical binding]; other site 884204012879 active site 884204012880 Transcriptional regulators [Transcription]; Region: GntR; COG1802 884204012881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 884204012882 FCD domain; Region: FCD; pfam07729 884204012883 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 884204012884 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 884204012885 putative ion selectivity filter; other site 884204012886 putative pore gating glutamate residue; other site 884204012887 H-type lectin domain; Region: H_lectin; pfam09458 884204012888 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 884204012889 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 884204012890 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 884204012891 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 884204012892 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204012893 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 884204012894 active site 884204012895 phosphorylation site [posttranslational modification] 884204012896 intermolecular recognition site; other site 884204012897 dimerization interface [polypeptide binding]; other site 884204012898 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 884204012899 DNA binding residues [nucleotide binding] 884204012900 dimerization interface [polypeptide binding]; other site 884204012901 MarR family; Region: MarR_2; cl17246 884204012902 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 884204012903 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 884204012904 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204012905 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 884204012906 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 884204012907 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 884204012908 Uncharacterized conserved protein [Function unknown]; Region: COG5649 884204012909 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 884204012910 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 884204012911 substrate binding site [chemical binding]; other site 884204012912 oxyanion hole (OAH) forming residues; other site 884204012913 trimer interface [polypeptide binding]; other site 884204012914 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 884204012915 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 884204012916 NAD(P) binding site [chemical binding]; other site 884204012917 catalytic residues [active] 884204012918 feruloyl-CoA synthase; Reviewed; Region: PRK08180 884204012919 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 884204012920 acyl-activating enzyme (AAE) consensus motif; other site 884204012921 putative active site [active] 884204012922 putative AMP binding site [chemical binding]; other site 884204012923 putative CoA binding site [chemical binding]; other site 884204012924 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 884204012925 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 884204012926 putative substrate translocation pore; other site 884204012927 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204012928 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 884204012929 trimer interface [polypeptide binding]; other site 884204012930 eyelet of channel; other site 884204012931 Tannase and feruloyl esterase; Region: Tannase; pfam07519 884204012932 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204012933 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 884204012934 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204012935 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 884204012936 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 884204012937 ligand binding site [chemical binding]; other site 884204012938 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 884204012939 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 884204012940 Walker A/P-loop; other site 884204012941 ATP binding site [chemical binding]; other site 884204012942 Q-loop/lid; other site 884204012943 ABC transporter signature motif; other site 884204012944 Walker B; other site 884204012945 D-loop; other site 884204012946 H-loop/switch region; other site 884204012947 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 884204012948 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 884204012949 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204012950 TM-ABC transporter signature motif; other site 884204012951 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 884204012952 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 884204012953 Amidohydrolase; Region: Amidohydro_2; pfam04909 884204012954 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 884204012955 active site 884204012956 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 884204012957 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 884204012958 NAD binding site [chemical binding]; other site 884204012959 homotetramer interface [polypeptide binding]; other site 884204012960 homodimer interface [polypeptide binding]; other site 884204012961 active site 884204012962 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 884204012963 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 884204012964 short chain dehydrogenase; Provisional; Region: PRK08628 884204012965 classical (c) SDRs; Region: SDR_c; cd05233 884204012966 NAD(P) binding site [chemical binding]; other site 884204012967 active site 884204012968 Domain of unknown function (DUF718); Region: DUF718; cl01281 884204012969 H-NS histone family; Region: Histone_HNS; pfam00816 884204012970 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204012971 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 884204012972 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204012973 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204012974 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 884204012975 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204012976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204012977 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 884204012978 CoenzymeA binding site [chemical binding]; other site 884204012979 subunit interaction site [polypeptide binding]; other site 884204012980 PHB binding site; other site 884204012981 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 884204012982 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 884204012983 dimerization interface [polypeptide binding]; other site 884204012984 ligand binding site [chemical binding]; other site 884204012985 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 884204012986 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 884204012987 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 884204012988 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 884204012989 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 884204012990 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 884204012991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204012992 metal binding site [ion binding]; metal-binding site 884204012993 active site 884204012994 I-site; other site 884204012995 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 884204012996 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204012997 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 884204012998 AsnC family; Region: AsnC_trans_reg; pfam01037 884204012999 aromatic amino acid transporter; Provisional; Region: PRK10238 884204013000 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 884204013001 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 884204013002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204013003 homodimer interface [polypeptide binding]; other site 884204013004 catalytic residue [active] 884204013005 Protein of unknown function, DUF488; Region: DUF488; cl01246 884204013006 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 884204013007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204013008 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 884204013009 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 884204013010 PAS fold; Region: PAS; pfam00989 884204013011 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 884204013012 putative active site [active] 884204013013 heme pocket [chemical binding]; other site 884204013014 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 884204013015 ATP binding site [chemical binding]; other site 884204013016 G-X-G motif; other site 884204013017 Response regulator receiver domain; Region: Response_reg; pfam00072 884204013018 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 884204013019 active site 884204013020 phosphorylation site [posttranslational modification] 884204013021 intermolecular recognition site; other site 884204013022 dimerization interface [polypeptide binding]; other site 884204013023 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 884204013024 Transglycosylase; Region: Transgly; pfam00912 884204013025 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 884204013026 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 884204013027 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 884204013028 MG2 domain; Region: A2M_N; pfam01835 884204013029 Alpha-2-macroglobulin family; Region: A2M; pfam00207 884204013030 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 884204013031 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 884204013032 putative active site pocket [active] 884204013033 dimerization interface [polypeptide binding]; other site 884204013034 putative catalytic residue [active] 884204013035 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 884204013036 active site 884204013037 HIGH motif; other site 884204013038 nucleotide binding site [chemical binding]; other site 884204013039 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 884204013040 active site 884204013041 KMSKS motif; other site 884204013042 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 884204013043 tRNA binding surface [nucleotide binding]; other site 884204013044 anticodon binding site; other site 884204013045 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 884204013046 S-adenosylmethionine binding site [chemical binding]; other site 884204013047 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 884204013048 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 884204013049 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 884204013050 substrate binding pocket [chemical binding]; other site 884204013051 active site 884204013052 iron coordination sites [ion binding]; other site 884204013053 Histone methylation protein DOT1; Region: DOT1; pfam08123 884204013054 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 884204013055 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 884204013056 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204013057 catalytic residue [active] 884204013058 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 884204013059 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 884204013060 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 884204013061 putative monooxygenase; Reviewed; Region: PRK07045 884204013062 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 884204013063 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 884204013064 sequence-specific DNA binding site [nucleotide binding]; other site 884204013065 salt bridge; other site 884204013066 Cupin domain; Region: Cupin_2; pfam07883 884204013067 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 884204013068 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 884204013069 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204013070 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 884204013071 active site 884204013072 phosphorylation site [posttranslational modification] 884204013073 intermolecular recognition site; other site 884204013074 dimerization interface [polypeptide binding]; other site 884204013075 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 884204013076 DNA binding residues [nucleotide binding] 884204013077 dimerization interface [polypeptide binding]; other site 884204013078 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 884204013079 Ligand Binding Site [chemical binding]; other site 884204013080 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 884204013081 Ligand Binding Site [chemical binding]; other site 884204013082 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 884204013083 Ligand Binding Site [chemical binding]; other site 884204013084 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 884204013085 Ligand Binding Site [chemical binding]; other site 884204013086 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 884204013087 Ligand Binding Site [chemical binding]; other site 884204013088 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 884204013089 Ligand Binding Site [chemical binding]; other site 884204013090 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 884204013091 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 884204013092 catalytic Zn binding site [ion binding]; other site 884204013093 structural Zn binding site [ion binding]; other site 884204013094 NAD(P) binding site [chemical binding]; other site 884204013095 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 884204013096 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 884204013097 active site residue [active] 884204013098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204013099 NAD(P) binding site [chemical binding]; other site 884204013100 active site 884204013101 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 884204013102 Spore germination protein; Region: Spore_permease; cl17796 884204013103 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 884204013104 sequence-specific DNA binding site [nucleotide binding]; other site 884204013105 salt bridge; other site 884204013106 H-NS histone family; Region: Histone_HNS; pfam00816 884204013107 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204013108 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 884204013109 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 884204013110 Flavin binding site [chemical binding]; other site 884204013111 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 884204013112 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 884204013113 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 884204013114 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 884204013115 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 884204013116 active site 884204013117 non-prolyl cis peptide bond; other site 884204013118 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 884204013119 active site 884204013120 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 884204013121 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 884204013122 substrate binding site [chemical binding]; other site 884204013123 dimer interface [polypeptide binding]; other site 884204013124 ATP binding site [chemical binding]; other site 884204013125 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 884204013126 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 884204013127 DEAD_2; Region: DEAD_2; pfam06733 884204013128 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 884204013129 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 884204013130 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 884204013131 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 884204013132 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 884204013133 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 884204013134 metal binding site [ion binding]; metal-binding site 884204013135 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 884204013136 flagellar capping protein; Reviewed; Region: fliD; PRK08032 884204013137 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 884204013138 transcriptional regulator; Provisional; Region: PRK10632 884204013139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204013140 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 884204013141 putative effector binding pocket; other site 884204013142 dimerization interface [polypeptide binding]; other site 884204013143 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 884204013144 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 884204013145 catalytic residues [active] 884204013146 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 884204013147 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 884204013148 active site 884204013149 catalytic tetrad [active] 884204013150 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 884204013151 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 884204013152 classical (c) SDRs; Region: SDR_c; cd05233 884204013153 NAD(P) binding site [chemical binding]; other site 884204013154 active site 884204013155 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204013156 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 884204013157 DNA binding residues [nucleotide binding] 884204013158 dimerization interface [polypeptide binding]; other site 884204013159 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 884204013160 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 884204013161 NAD(P) binding site [chemical binding]; other site 884204013162 catalytic residues [active] 884204013163 hypothetical protein; Provisional; Region: PRK07481 884204013164 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 884204013165 inhibitor-cofactor binding pocket; inhibition site 884204013166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204013167 catalytic residue [active] 884204013168 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 884204013169 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 884204013170 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204013171 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204013172 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 884204013173 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204013174 eyelet of channel; other site 884204013175 trimer interface [polypeptide binding]; other site 884204013176 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204013177 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 884204013178 Coenzyme A binding pocket [chemical binding]; other site 884204013179 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 884204013180 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 884204013181 FMN binding site [chemical binding]; other site 884204013182 active site 884204013183 substrate binding site [chemical binding]; other site 884204013184 catalytic residue [active] 884204013185 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 884204013186 putative DNA binding site [nucleotide binding]; other site 884204013187 dimerization interface [polypeptide binding]; other site 884204013188 putative Zn2+ binding site [ion binding]; other site 884204013189 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204013190 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 884204013191 trimer interface [polypeptide binding]; other site 884204013192 eyelet of channel; other site 884204013193 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 884204013194 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 884204013195 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 884204013196 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 884204013197 FOG: CBS domain [General function prediction only]; Region: COG0517 884204013198 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 884204013199 dimerization interface [polypeptide binding]; other site 884204013200 active site 884204013201 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 884204013202 NADH/NADPH cofactor binding site [chemical binding]; other site 884204013203 Autoinducer synthetase; Region: Autoind_synth; cl17404 884204013204 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 884204013205 Autoinducer binding domain; Region: Autoind_bind; pfam03472 884204013206 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 884204013207 DNA binding residues [nucleotide binding] 884204013208 dimerization interface [polypeptide binding]; other site 884204013209 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 884204013210 MgtC family; Region: MgtC; pfam02308 884204013211 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 884204013212 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 884204013213 putative active site [active] 884204013214 putative metal binding site [ion binding]; other site 884204013215 Nitroreductase-like family 5. 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_5; cd02148 884204013216 putative FMN binding site [chemical binding]; other site 884204013217 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 884204013218 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 884204013219 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204013220 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204013221 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204013222 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 884204013223 trimer interface [polypeptide binding]; other site 884204013224 eyelet of channel; other site 884204013225 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 884204013226 [2Fe-2S] cluster binding site [ion binding]; other site 884204013227 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 884204013228 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 884204013229 [2Fe-2S] cluster binding site [ion binding]; other site 884204013230 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 884204013231 hydrophobic ligand binding site; other site 884204013232 short chain dehydrogenase; Provisional; Region: PRK12939 884204013233 classical (c) SDRs; Region: SDR_c; cd05233 884204013234 NAD(P) binding site [chemical binding]; other site 884204013235 active site 884204013236 Cupin domain; Region: Cupin_2; pfam07883 884204013237 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 884204013238 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 884204013239 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204013240 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204013241 short chain dehydrogenase; Provisional; Region: PRK07062 884204013242 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 884204013243 putative NAD(P) binding site [chemical binding]; other site 884204013244 putative active site [active] 884204013245 hypothetical protein; Provisional; Region: PRK07064 884204013246 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204013247 PYR/PP interface [polypeptide binding]; other site 884204013248 dimer interface [polypeptide binding]; other site 884204013249 TPP binding site [chemical binding]; other site 884204013250 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204013251 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 884204013252 TPP-binding site [chemical binding]; other site 884204013253 L-aspartate dehydrogenase; Provisional; Region: PRK13303 884204013254 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 884204013255 Domain of unknown function DUF108; Region: DUF108; pfam01958 884204013256 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 884204013257 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 884204013258 NAD(P) binding site [chemical binding]; other site 884204013259 catalytic residues [active] 884204013260 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 884204013261 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 884204013262 active site 884204013263 metal binding site [ion binding]; metal-binding site 884204013264 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 884204013265 putative active site [active] 884204013266 putative metal binding site [ion binding]; other site 884204013267 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 884204013268 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204013269 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204013270 benzoate transport; Region: 2A0115; TIGR00895 884204013271 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 884204013272 putative substrate translocation pore; other site 884204013273 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 884204013274 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 884204013275 trimer interface [polypeptide binding]; other site 884204013276 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 884204013277 trimer interface [polypeptide binding]; other site 884204013278 Haemagglutinin; Region: HIM; pfam05662 884204013279 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 884204013280 trimer interface [polypeptide binding]; other site 884204013281 Haemagglutinin; Region: HIM; pfam05662 884204013282 Haemagglutinin; Region: HIM; pfam05662 884204013283 YadA-like C-terminal region; Region: YadA; pfam03895 884204013284 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 884204013285 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 884204013286 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204013287 ligand binding site [chemical binding]; other site 884204013288 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 884204013289 Ligand Binding Site [chemical binding]; other site 884204013290 amidase; Provisional; Region: PRK07486 884204013291 Amidase; Region: Amidase; pfam01425 884204013292 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204013293 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 884204013294 dimerization interface [polypeptide binding]; other site 884204013295 putative DNA binding site [nucleotide binding]; other site 884204013296 putative Zn2+ binding site [ion binding]; other site 884204013297 AsnC family; Region: AsnC_trans_reg; pfam01037 884204013298 methionine gamma-lyase; Validated; Region: PRK07049 884204013299 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 884204013300 homodimer interface [polypeptide binding]; other site 884204013301 substrate-cofactor binding pocket; other site 884204013302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204013303 catalytic residue [active] 884204013304 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 884204013305 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 884204013306 Predicted transcriptional regulator [Transcription]; Region: COG1959 884204013307 Transcriptional regulator; Region: Rrf2; pfam02082 884204013308 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 884204013309 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204013310 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204013311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204013312 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 884204013313 dimerization interface [polypeptide binding]; other site 884204013314 hypothetical protein; Provisional; Region: PRK07079 884204013315 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 884204013316 metal binding site [ion binding]; metal-binding site 884204013317 putative dimer interface [polypeptide binding]; other site 884204013318 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 884204013319 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204013320 putative substrate translocation pore; other site 884204013321 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204013322 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204013323 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 884204013324 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 884204013325 short chain dehydrogenase; Provisional; Region: PRK07832 884204013326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204013327 NAD(P) binding site [chemical binding]; other site 884204013328 active site 884204013329 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 884204013330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 884204013331 YhhN-like protein; Region: YhhN; pfam07947 884204013332 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 884204013333 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 884204013334 substrate binding pocket [chemical binding]; other site 884204013335 membrane-bound complex binding site; other site 884204013336 hinge residues; other site 884204013337 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 884204013338 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 884204013339 DNA binding residues [nucleotide binding] 884204013340 putative dimer interface [polypeptide binding]; other site 884204013341 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 884204013342 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204013343 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204013344 Coenzyme A binding pocket [chemical binding]; other site 884204013345 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 884204013346 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 884204013347 putative substrate translocation pore; other site 884204013348 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 884204013349 Tar ligand binding domain homologue; Region: TarH; pfam02203 884204013350 dimer interface [polypeptide binding]; other site 884204013351 ligand binding site [chemical binding]; other site 884204013352 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 884204013353 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 884204013354 dimerization interface [polypeptide binding]; other site 884204013355 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204013356 dimer interface [polypeptide binding]; other site 884204013357 putative CheW interface [polypeptide binding]; other site 884204013358 Family description; Region: UvrD_C_2; pfam13538 884204013359 BetR domain; Region: BetR; pfam08667 884204013360 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 884204013361 active site 884204013362 phosphorylation site [posttranslational modification] 884204013363 intermolecular recognition site; other site 884204013364 dimerization interface [polypeptide binding]; other site 884204013365 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 884204013366 hydroxyglutarate oxidase; Provisional; Region: PRK11728 884204013367 Ion channel; Region: Ion_trans_2; pfam07885 884204013368 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 884204013369 TrkA-N domain; Region: TrkA_N; pfam02254 884204013370 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204013371 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204013372 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 884204013373 ornithine cyclodeaminase; Validated; Region: PRK07340 884204013374 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 884204013375 Putative esterase; Region: Esterase; pfam00756 884204013376 OpgC protein; Region: OpgC_C; pfam10129 884204013377 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204013378 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 884204013379 trimer interface [polypeptide binding]; other site 884204013380 eyelet of channel; other site 884204013381 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204013382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204013383 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 884204013384 putative dimerization interface [polypeptide binding]; other site 884204013385 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 884204013386 Peptidase family M23; Region: Peptidase_M23; pfam01551 884204013387 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 884204013388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204013389 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 884204013390 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 884204013391 substrate binding pocket [chemical binding]; other site 884204013392 dimerization interface [polypeptide binding]; other site 884204013393 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 884204013394 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204013395 Walker A/P-loop; other site 884204013396 ATP binding site [chemical binding]; other site 884204013397 Q-loop/lid; other site 884204013398 ABC transporter signature motif; other site 884204013399 Walker B; other site 884204013400 D-loop; other site 884204013401 H-loop/switch region; other site 884204013402 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 884204013403 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204013404 Walker A/P-loop; other site 884204013405 ATP binding site [chemical binding]; other site 884204013406 Q-loop/lid; other site 884204013407 ABC transporter signature motif; other site 884204013408 Walker B; other site 884204013409 D-loop; other site 884204013410 H-loop/switch region; other site 884204013411 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 884204013412 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 884204013413 dimer interface [polypeptide binding]; other site 884204013414 conserved gate region; other site 884204013415 putative PBP binding loops; other site 884204013416 ABC-ATPase subunit interface; other site 884204013417 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 884204013418 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 884204013419 dimer interface [polypeptide binding]; other site 884204013420 conserved gate region; other site 884204013421 putative PBP binding loops; other site 884204013422 ABC-ATPase subunit interface; other site 884204013423 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 884204013424 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 884204013425 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 884204013426 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 884204013427 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 884204013428 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 884204013429 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 884204013430 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204013431 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204013432 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 884204013433 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 884204013434 PAAR motif; Region: PAAR_motif; pfam05488 884204013435 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 884204013436 RHS Repeat; Region: RHS_repeat; cl11982 884204013437 RHS Repeat; Region: RHS_repeat; pfam05593 884204013438 RHS Repeat; Region: RHS_repeat; pfam05593 884204013439 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 884204013440 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 884204013441 RHS Repeat; Region: RHS_repeat; pfam05593 884204013442 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 884204013443 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 884204013444 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 884204013445 catalytic triad [active] 884204013446 putative active site [active] 884204013447 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 884204013448 Autotransporter beta-domain; Region: Autotransporter; smart00869 884204013449 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 884204013450 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 884204013451 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 884204013452 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 884204013453 Cupin; Region: Cupin_1; smart00835 884204013454 Cupin; Region: Cupin_1; smart00835 884204013455 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 884204013456 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 884204013457 Predicted membrane protein [Function unknown]; Region: COG4682 884204013458 yiaA/B two helix domain; Region: YiaAB; pfam05360 884204013459 yiaA/B two helix domain; Region: YiaAB; pfam05360 884204013460 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 884204013461 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 884204013462 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 884204013463 putative molybdopterin cofactor binding site [chemical binding]; other site 884204013464 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 884204013465 putative molybdopterin cofactor binding site; other site 884204013466 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 884204013467 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204013468 DNA-binding site [nucleotide binding]; DNA binding site 884204013469 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 884204013470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204013471 homodimer interface [polypeptide binding]; other site 884204013472 catalytic residue [active] 884204013473 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 884204013474 magnesium-transporting ATPase; Provisional; Region: PRK15122 884204013475 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 884204013476 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 884204013477 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 884204013478 Soluble P-type ATPase [General function prediction only]; Region: COG4087 884204013479 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 884204013480 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 884204013481 active site 884204013482 catalytic triad [active] 884204013483 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 884204013484 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 884204013485 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 884204013486 Cytochrome c; Region: Cytochrom_C; pfam00034 884204013487 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204013488 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204013489 Cytochrome c; Region: Cytochrom_C; pfam00034 884204013490 Predicted membrane protein [Function unknown]; Region: COG2259 884204013491 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204013492 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 884204013493 trimer interface [polypeptide binding]; other site 884204013494 eyelet of channel; other site 884204013495 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 884204013496 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 884204013497 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 884204013498 dimer interface [polypeptide binding]; other site 884204013499 conserved gate region; other site 884204013500 putative PBP binding loops; other site 884204013501 ABC-ATPase subunit interface; other site 884204013502 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 884204013503 dimer interface [polypeptide binding]; other site 884204013504 conserved gate region; other site 884204013505 putative PBP binding loops; other site 884204013506 ABC-ATPase subunit interface; other site 884204013507 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 884204013508 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 884204013509 Walker A/P-loop; other site 884204013510 ATP binding site [chemical binding]; other site 884204013511 Q-loop/lid; other site 884204013512 ABC transporter signature motif; other site 884204013513 Walker B; other site 884204013514 D-loop; other site 884204013515 H-loop/switch region; other site 884204013516 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 884204013517 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 884204013518 putative active site [active] 884204013519 Uncharacterized conserved protein [Function unknown]; Region: COG3791 884204013520 H+ Antiporter protein; Region: 2A0121; TIGR00900 884204013521 Histidine kinase; Region: His_kinase; pfam06580 884204013522 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 884204013523 ATP binding site [chemical binding]; other site 884204013524 Mg2+ binding site [ion binding]; other site 884204013525 G-X-G motif; other site 884204013526 LytTr DNA-binding domain; Region: LytTR; smart00850 884204013527 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 884204013528 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 884204013529 tetramer interface [polypeptide binding]; other site 884204013530 heme binding pocket [chemical binding]; other site 884204013531 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 884204013532 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204013533 S-adenosylmethionine binding site [chemical binding]; other site 884204013534 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 884204013535 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204013536 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 884204013537 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 884204013538 iron-sulfur cluster [ion binding]; other site 884204013539 [2Fe-2S] cluster binding site [ion binding]; other site 884204013540 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 884204013541 hydrophobic ligand binding site; other site 884204013542 TPR repeat; Region: TPR_11; pfam13414 884204013543 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 884204013544 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 884204013545 dimer interface [polypeptide binding]; other site 884204013546 active site 884204013547 acyl carrier protein; Validated; Region: PRK07117 884204013548 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 884204013549 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 884204013550 substrate binding site [chemical binding]; other site 884204013551 oxyanion hole (OAH) forming residues; other site 884204013552 trimer interface [polypeptide binding]; other site 884204013553 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 884204013554 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 884204013555 substrate binding site [chemical binding]; other site 884204013556 oxyanion hole (OAH) forming residues; other site 884204013557 trimer interface [polypeptide binding]; other site 884204013558 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 884204013559 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 884204013560 dimer interface [polypeptide binding]; other site 884204013561 active site 884204013562 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 884204013563 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 884204013564 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 884204013565 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013566 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 884204013567 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 884204013568 active site 884204013569 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 884204013570 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 884204013571 KR domain; Region: KR; pfam08659 884204013572 putative NADP binding site [chemical binding]; other site 884204013573 active site 884204013574 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013575 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 884204013576 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 884204013577 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 884204013578 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204013579 catalytic residue [active] 884204013580 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 884204013581 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204013582 active site 884204013583 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 884204013584 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204013585 active site 884204013586 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204013587 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013588 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013589 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204013590 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 884204013591 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204013592 active site 884204013593 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 884204013594 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 884204013595 putative NADP binding site [chemical binding]; other site 884204013596 KR domain; Region: KR; pfam08659 884204013597 active site 884204013598 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013599 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 884204013600 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204013601 active site 884204013602 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013603 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013604 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 884204013605 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204013606 active site 884204013607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204013608 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 884204013609 NAD(P) binding site [chemical binding]; other site 884204013610 Methyltransferase domain; Region: Methyltransf_12; pfam08242 884204013611 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204013612 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204013613 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 884204013614 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204013615 active site 884204013616 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013617 Condensation domain; Region: Condensation; pfam00668 884204013618 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204013619 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204013620 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204013621 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204013622 acyl-activating enzyme (AAE) consensus motif; other site 884204013623 AMP binding site [chemical binding]; other site 884204013624 active site 884204013625 CoA binding site [chemical binding]; other site 884204013626 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204013627 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204013628 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 884204013629 active site 884204013630 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 884204013631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204013632 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 884204013633 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204013634 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 884204013635 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 884204013636 active site 884204013637 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 884204013638 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 884204013639 putative NADP binding site [chemical binding]; other site 884204013640 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 884204013641 active site 884204013642 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204013643 Methyltransferase domain; Region: Methyltransf_12; pfam08242 884204013644 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013645 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013646 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204013647 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 884204013648 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 884204013649 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204013650 catalytic residue [active] 884204013651 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 884204013652 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 884204013653 active site 884204013654 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 884204013655 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 884204013656 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 884204013657 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 884204013658 Cl- selectivity filter; other site 884204013659 Cl- binding residues [ion binding]; other site 884204013660 pore gating glutamate residue; other site 884204013661 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 884204013662 MarR family; Region: MarR_2; pfam12802 884204013663 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 884204013664 HPP family; Region: HPP; pfam04982 884204013665 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 884204013666 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204013667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204013668 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 884204013669 putative effector binding pocket; other site 884204013670 dimerization interface [polypeptide binding]; other site 884204013671 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 884204013672 MarC family integral membrane protein; Region: MarC; cl00919 884204013673 CAAX protease self-immunity; Region: Abi; pfam02517 884204013674 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 884204013675 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 884204013676 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204013677 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204013678 RNA polymerase sigma factor; Provisional; Region: PRK12547 884204013679 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204013680 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 884204013681 DNA binding residues [nucleotide binding] 884204013682 YceI-like domain; Region: YceI; pfam04264 884204013683 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 884204013684 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 884204013685 RNA polymerase sigma factor; Provisional; Region: PRK12528 884204013686 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204013687 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 884204013688 DNA binding residues [nucleotide binding] 884204013689 fec operon regulator FecR; Reviewed; Region: PRK09774 884204013690 FecR protein; Region: FecR; pfam04773 884204013691 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 884204013692 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 884204013693 N-terminal plug; other site 884204013694 ligand-binding site [chemical binding]; other site 884204013695 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 884204013696 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 884204013697 TM-ABC transporter signature motif; other site 884204013698 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 884204013699 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 884204013700 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 884204013701 Walker A/P-loop; other site 884204013702 ATP binding site [chemical binding]; other site 884204013703 Q-loop/lid; other site 884204013704 ABC transporter signature motif; other site 884204013705 Walker B; other site 884204013706 D-loop; other site 884204013707 H-loop/switch region; other site 884204013708 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 884204013709 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 884204013710 Methylthioribose-binding protein-like of 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_methylthioribose_binding_like; cd06305 884204013711 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 884204013712 putative ligand binding site [chemical binding]; other site 884204013713 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 884204013714 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 884204013715 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204013716 active site 884204013717 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 884204013718 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 884204013719 putative substrate translocation pore; other site 884204013720 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 884204013721 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 884204013722 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 884204013723 dimerization interface [polypeptide binding]; other site 884204013724 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 884204013725 dimer interface [polypeptide binding]; other site 884204013726 phosphorylation site [posttranslational modification] 884204013727 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 884204013728 ATP binding site [chemical binding]; other site 884204013729 Mg2+ binding site [ion binding]; other site 884204013730 G-X-G motif; other site 884204013731 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 884204013732 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 884204013733 active site 884204013734 phosphorylation site [posttranslational modification] 884204013735 intermolecular recognition site; other site 884204013736 dimerization interface [polypeptide binding]; other site 884204013737 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 884204013738 DNA binding site [nucleotide binding] 884204013739 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 884204013740 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204013741 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 884204013742 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204013743 Outer membrane efflux protein; Region: OEP; pfam02321 884204013744 Outer membrane efflux protein; Region: OEP; pfam02321 884204013745 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 884204013746 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 884204013747 putative deacylase active site [active] 884204013748 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 884204013749 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 884204013750 hexamer interface [polypeptide binding]; other site 884204013751 ligand binding site [chemical binding]; other site 884204013752 putative active site [active] 884204013753 NAD(P) binding site [chemical binding]; other site 884204013754 H-NS histone family; Region: Histone_HNS; pfam00816 884204013755 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204013756 ProQ/FINO family; Region: ProQ; pfam04352 884204013757 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 884204013758 putative RNA binding sites [nucleotide binding]; other site 884204013759 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 884204013760 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 884204013761 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 884204013762 nucleotide binding site [chemical binding]; other site 884204013763 putative NEF/HSP70 interaction site [polypeptide binding]; other site 884204013764 SBD interface [polypeptide binding]; other site 884204013765 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 884204013766 nucleotide binding site [chemical binding]; other site 884204013767 putative NEF/HSP70 interaction site [polypeptide binding]; other site 884204013768 SBD interface [polypeptide binding]; other site 884204013769 DNA-K related protein; Region: DUF3731; pfam12531 884204013770 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 884204013771 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 884204013772 putative active site [active] 884204013773 putative metal binding site [ion binding]; other site 884204013774 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 884204013775 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 884204013776 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 884204013777 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 884204013778 Soluble P-type ATPase [General function prediction only]; Region: COG4087 884204013779 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 884204013780 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204013781 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 884204013782 S-adenosylmethionine binding site [chemical binding]; other site 884204013783 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 884204013784 Mannan-binding protein; Region: MVL; pfam12151 884204013785 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 884204013786 dimer interface [polypeptide binding]; other site 884204013787 substrate binding site [chemical binding]; other site 884204013788 ATP binding site [chemical binding]; other site 884204013789 Methyltransferase domain; Region: Methyltransf_11; pfam08241 884204013790 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 884204013791 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 884204013792 dimerization interface [polypeptide binding]; other site 884204013793 active site 884204013794 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 884204013795 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_15; cd04673 884204013796 nudix motif; other site 884204013797 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204013798 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 884204013799 S-adenosylmethionine binding site [chemical binding]; other site 884204013800 Protein of unknown function (DUF971); Region: DUF971; cl01414 884204013801 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 884204013802 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 884204013803 substrate binding pocket [chemical binding]; other site 884204013804 active site 884204013805 iron coordination sites [ion binding]; other site 884204013806 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 884204013807 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 884204013808 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 884204013809 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 884204013810 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 884204013811 Walker A motif; other site 884204013812 ATP binding site [chemical binding]; other site 884204013813 Walker B motif; other site 884204013814 arginine finger; other site 884204013815 Peptidase family M41; Region: Peptidase_M41; pfam01434 884204013816 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 884204013817 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 884204013818 active site 884204013819 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 884204013820 Predicted transcriptional regulator [Transcription]; Region: COG2345 884204013821 MarR family; Region: MarR_2; pfam12802 884204013822 Transcriptional regulator PadR-like family; Region: PadR; cl17335 884204013823 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 884204013824 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 884204013825 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204013826 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204013827 multidrug efflux protein; Reviewed; Region: PRK09579 884204013828 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 884204013829 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 884204013830 dimerization interface [polypeptide binding]; other site 884204013831 active site 884204013832 FOG: WD40 repeat [General function prediction only]; Region: COG2319 884204013833 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 884204013834 structural tetrad; other site 884204013835 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 884204013836 structural tetrad; other site 884204013837 FOG: WD40 repeat [General function prediction only]; Region: COG2319 884204013838 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204013839 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 884204013840 S-adenosylmethionine binding site [chemical binding]; other site 884204013841 Uncharacterized conserved protein [Function unknown]; Region: COG1262 884204013842 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 884204013843 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 884204013844 catalytic motif [active] 884204013845 Zn binding site [ion binding]; other site 884204013846 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 884204013847 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 884204013848 S-adenosylmethionine binding site [chemical binding]; other site 884204013849 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204013850 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 884204013851 active site 884204013852 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 884204013853 putative substrate translocation pore; other site 884204013854 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 884204013855 PAS fold; Region: PAS_4; pfam08448 884204013856 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 884204013857 DNA binding residues [nucleotide binding] 884204013858 dimerization interface [polypeptide binding]; other site 884204013859 SnoaL-like domain; Region: SnoaL_2; pfam12680 884204013860 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 884204013861 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 884204013862 active site 884204013863 FMN binding site [chemical binding]; other site 884204013864 2,4-decadienoyl-CoA binding site; other site 884204013865 catalytic residue [active] 884204013866 4Fe-4S cluster binding site [ion binding]; other site 884204013867 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 884204013868 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204013869 Predicted transcriptional regulators [Transcription]; Region: COG1695 884204013870 Transcriptional regulator PadR-like family; Region: PadR; cl17335 884204013871 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 884204013872 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 884204013873 substrate binding site [chemical binding]; other site 884204013874 multimerization interface [polypeptide binding]; other site 884204013875 ATP binding site [chemical binding]; other site 884204013876 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 884204013877 substrate binding pocket [chemical binding]; other site 884204013878 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 884204013879 active site 884204013880 iron coordination sites [ion binding]; other site 884204013881 Membrane transport protein; Region: Mem_trans; cl09117 884204013882 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 884204013883 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 884204013884 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 884204013885 Ligand Binding Site [chemical binding]; other site 884204013886 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 884204013887 Ligand Binding Site [chemical binding]; other site 884204013888 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 884204013889 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 884204013890 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 884204013891 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 884204013892 hydrogenase 4 subunit F; Validated; Region: PRK06458 884204013893 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 884204013894 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 884204013895 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 884204013896 NADH dehydrogenase; Region: NADHdh; cl00469 884204013897 hydrogenase 4 subunit B; Validated; Region: PRK06521 884204013898 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 884204013899 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 884204013900 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 884204013901 regulatory phosphorylation site [posttranslational modification]; other site 884204013902 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 884204013903 S-adenosylmethionine binding site [chemical binding]; other site 884204013904 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 884204013905 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 884204013906 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 884204013907 putative substrate translocation pore; other site 884204013908 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 884204013909 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 884204013910 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 884204013911 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 884204013912 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 884204013913 4Fe-4S binding domain; Region: Fer4; cl02805 884204013914 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 884204013915 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 884204013916 [4Fe-4S] binding site [ion binding]; other site 884204013917 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 884204013918 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 884204013919 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 884204013920 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 884204013921 molybdopterin cofactor binding site; other site 884204013922 CHASE domain; Region: CHASE; cl01369 884204013923 PAS domain S-box; Region: sensory_box; TIGR00229 884204013924 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 884204013925 putative active site [active] 884204013926 heme pocket [chemical binding]; other site 884204013927 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 884204013928 Histidine kinase; Region: HisKA_3; pfam07730 884204013929 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 884204013930 ATP binding site [chemical binding]; other site 884204013931 Mg2+ binding site [ion binding]; other site 884204013932 G-X-G motif; other site 884204013933 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204013934 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 884204013935 active site 884204013936 phosphorylation site [posttranslational modification] 884204013937 intermolecular recognition site; other site 884204013938 dimerization interface [polypeptide binding]; other site 884204013939 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 884204013940 DNA binding residues [nucleotide binding] 884204013941 dimerization interface [polypeptide binding]; other site 884204013942 Response regulator receiver domain; Region: Response_reg; pfam00072 884204013943 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 884204013944 active site 884204013945 phosphorylation site [posttranslational modification] 884204013946 intermolecular recognition site; other site 884204013947 dimerization interface [polypeptide binding]; other site 884204013948 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 884204013949 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 884204013950 ligand binding site [chemical binding]; other site 884204013951 flexible hinge region; other site 884204013952 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 884204013953 putative switch regulator; other site 884204013954 non-specific DNA interactions [nucleotide binding]; other site 884204013955 DNA binding site [nucleotide binding] 884204013956 sequence specific DNA binding site [nucleotide binding]; other site 884204013957 putative cAMP binding site [chemical binding]; other site 884204013958 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 884204013959 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 884204013960 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 884204013961 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 884204013962 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 884204013963 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 884204013964 putative substrate translocation pore; other site 884204013965 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 884204013966 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 884204013967 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 884204013968 Predicted membrane protein (DUF2070); Region: DUF2070; pfam09843 884204013969 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 884204013970 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204013971 active site 884204013972 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204013973 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204013974 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204013975 acyl-activating enzyme (AAE) consensus motif; other site 884204013976 AMP binding site [chemical binding]; other site 884204013977 active site 884204013978 CoA binding site [chemical binding]; other site 884204013979 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204013980 Condensation domain; Region: Condensation; pfam00668 884204013981 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204013982 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204013983 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 884204013984 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 884204013985 active site 884204013986 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 884204013987 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 884204013988 putative NADP binding site [chemical binding]; other site 884204013989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204013990 NAD(P) binding site [chemical binding]; other site 884204013991 active site 884204013992 active site 884204013993 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204013994 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 884204013995 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 884204013996 active site 884204013997 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 884204013998 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 884204013999 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 884204014000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204014001 NAD(P) binding site [chemical binding]; other site 884204014002 active site 884204014003 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014004 Condensation domain; Region: Condensation; pfam00668 884204014005 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204014006 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 884204014007 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204014008 acyl-activating enzyme (AAE) consensus motif; other site 884204014009 AMP binding site [chemical binding]; other site 884204014010 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014011 Condensation domain; Region: Condensation; pfam00668 884204014012 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204014013 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204014014 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 884204014015 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 884204014016 active site 884204014017 Zn binding site [ion binding]; other site 884204014018 Autoinducer binding domain; Region: Autoind_bind; pfam03472 884204014019 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 884204014020 DNA binding residues [nucleotide binding] 884204014021 dimerization interface [polypeptide binding]; other site 884204014022 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 884204014023 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 884204014024 Autoinducer synthetase; Region: Autoind_synth; cl17404 884204014025 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 884204014026 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204014027 acyl-activating enzyme (AAE) consensus motif; other site 884204014028 AMP binding site [chemical binding]; other site 884204014029 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014030 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 884204014031 shikimate transporter; Provisional; Region: PRK09952 884204014032 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 884204014033 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204014034 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204014035 acyl-CoA synthetase; Validated; Region: PRK05850 884204014036 acyl-activating enzyme (AAE) consensus motif; other site 884204014037 active site 884204014038 AMP binding site [chemical binding]; other site 884204014039 CoA binding site [chemical binding]; other site 884204014040 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204014041 CoA binding site [chemical binding]; other site 884204014042 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 884204014043 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 884204014044 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 884204014045 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204014046 catalytic residue [active] 884204014047 Condensation domain; Region: Condensation; pfam00668 884204014048 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 884204014049 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204014050 acyl-activating enzyme (AAE) consensus motif; other site 884204014051 AMP binding site [chemical binding]; other site 884204014052 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014053 Condensation domain; Region: Condensation; pfam00668 884204014054 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204014055 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204014056 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204014057 acyl-activating enzyme (AAE) consensus motif; other site 884204014058 AMP binding site [chemical binding]; other site 884204014059 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014060 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 884204014061 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 884204014062 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 884204014063 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 884204014064 active site 884204014065 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 884204014066 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 884204014067 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014068 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 884204014069 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204014070 catalytic residue [active] 884204014071 Condensation domain; Region: Condensation; pfam00668 884204014072 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204014073 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204014074 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204014075 acyl-activating enzyme (AAE) consensus motif; other site 884204014076 AMP binding site [chemical binding]; other site 884204014077 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014078 Condensation domain; Region: Condensation; pfam00668 884204014079 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 884204014080 major capsid protein; Region: PHA00665 884204014081 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204014082 DNA-binding site [nucleotide binding]; DNA binding site 884204014083 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 884204014084 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 884204014085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204014086 homodimer interface [polypeptide binding]; other site 884204014087 catalytic residue [active] 884204014088 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 884204014089 Uncharacterized conserved protein [Function unknown]; Region: COG2128 884204014090 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 884204014091 Predicted small secreted protein [Function unknown]; Region: COG5510 884204014092 aspartate carbamoyltransferase; Provisional; Region: PRK11891 884204014093 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 884204014094 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 884204014095 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 884204014096 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 884204014097 N-terminal plug; other site 884204014098 ligand-binding site [chemical binding]; other site 884204014099 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 884204014100 Sel1 repeat; Region: Sel1; cl02723 884204014101 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 884204014102 Transposase, Mutator family; Region: Transposase_mut; pfam00872 884204014103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 884204014104 Transposase; Region: HTH_Tnp_1; cl17663 884204014105 Uncharacterized conserved protein [Function unknown]; Region: COG4104 884204014106 Protein of unknown function (DUF2875); Region: DUF2875; pfam11394 884204014107 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 884204014108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 884204014109 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204014110 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204014111 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 884204014112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 884204014113 H-NS histone family; Region: Histone_HNS; pfam00816 884204014114 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204014115 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 884204014116 DNA binding residues [nucleotide binding] 884204014117 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204014118 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 884204014119 thiamine phosphate binding site [chemical binding]; other site 884204014120 active site 884204014121 pyrophosphate binding site [ion binding]; other site 884204014122 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 884204014123 metal-binding site 884204014124 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 884204014125 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 884204014126 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 884204014127 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204014128 dimer interface [polypeptide binding]; other site 884204014129 putative CheW interface [polypeptide binding]; other site 884204014130 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 884204014131 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 884204014132 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 884204014133 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 884204014134 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 884204014135 ligand binding site [chemical binding]; other site 884204014136 short chain dehydrogenase; Provisional; Region: PRK07074 884204014137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204014138 NAD(P) binding site [chemical binding]; other site 884204014139 active site 884204014140 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 884204014141 putative cation:proton antiport protein; Provisional; Region: PRK10669 884204014142 TrkA-N domain; Region: TrkA_N; pfam02254 884204014143 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 884204014144 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 884204014145 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 884204014146 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 884204014147 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 884204014148 dimer interface [polypeptide binding]; other site 884204014149 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 884204014150 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 884204014151 Cl binding site [ion binding]; other site 884204014152 oligomer interface [polypeptide binding]; other site 884204014153 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 884204014154 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 884204014155 Electron transfer DM13; Region: DM13; pfam10517 884204014156 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 884204014157 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 884204014158 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 884204014159 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 884204014160 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 884204014161 dimer interface [polypeptide binding]; other site 884204014162 conserved gate region; other site 884204014163 putative PBP binding loops; other site 884204014164 ABC-ATPase subunit interface; other site 884204014165 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 884204014166 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 884204014167 inhibitor binding site; inhibition site 884204014168 catalytic Zn binding site [ion binding]; other site 884204014169 structural Zn binding site [ion binding]; other site 884204014170 NADP binding site [chemical binding]; other site 884204014171 tetramer interface [polypeptide binding]; other site 884204014172 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 884204014173 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204014174 Walker A/P-loop; other site 884204014175 ATP binding site [chemical binding]; other site 884204014176 Q-loop/lid; other site 884204014177 ABC transporter signature motif; other site 884204014178 Walker B; other site 884204014179 D-loop; other site 884204014180 H-loop/switch region; other site 884204014181 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 884204014182 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 884204014183 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204014184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204014185 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 884204014186 N- and C-terminal domain interface [polypeptide binding]; other site 884204014187 active site 884204014188 MgATP binding site [chemical binding]; other site 884204014189 catalytic site [active] 884204014190 metal binding site [ion binding]; metal-binding site 884204014191 xylulose binding site [chemical binding]; other site 884204014192 homodimer interface [polypeptide binding]; other site 884204014193 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 884204014194 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 884204014195 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 884204014196 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 884204014197 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 884204014198 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 884204014199 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 884204014200 [4Fe-4S] binding site [ion binding]; other site 884204014201 molybdopterin cofactor binding site; other site 884204014202 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 884204014203 molybdopterin cofactor binding site; other site 884204014204 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 884204014205 Flavodoxin; Region: Flavodoxin_1; pfam00258 884204014206 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 884204014207 FAD binding pocket [chemical binding]; other site 884204014208 FAD binding motif [chemical binding]; other site 884204014209 catalytic residues [active] 884204014210 NAD binding pocket [chemical binding]; other site 884204014211 phosphate binding motif [ion binding]; other site 884204014212 beta-alpha-beta structure motif; other site 884204014213 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 884204014214 nitrite reductase subunit NirD; Provisional; Region: PRK14989 884204014215 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204014216 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 884204014217 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 884204014218 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 884204014219 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 884204014220 active site 884204014221 SAM binding site [chemical binding]; other site 884204014222 homodimer interface [polypeptide binding]; other site 884204014223 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 884204014224 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 884204014225 active site 884204014226 phosphorylation site [posttranslational modification] 884204014227 intermolecular recognition site; other site 884204014228 dimerization interface [polypeptide binding]; other site 884204014229 ANTAR domain; Region: ANTAR; pfam03861 884204014230 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 884204014231 NMT1-like family; Region: NMT1_2; pfam13379 884204014232 GTP cyclohydrolase I; Reviewed; Region: PRK12606 884204014233 GTP cyclohydrolase I; Provisional; Region: PLN03044 884204014234 active site 884204014235 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 884204014236 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 884204014237 active site 884204014238 Zn binding site [ion binding]; other site 884204014239 allantoate amidohydrolase; Reviewed; Region: PRK12893 884204014240 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 884204014241 active site 884204014242 metal binding site [ion binding]; metal-binding site 884204014243 dimer interface [polypeptide binding]; other site 884204014244 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 884204014245 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204014246 putative substrate translocation pore; other site 884204014247 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204014248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204014249 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 884204014250 dimerization interface [polypeptide binding]; other site 884204014251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204014252 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204014253 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 884204014254 putative effector binding pocket; other site 884204014255 putative dimerization interface [polypeptide binding]; other site 884204014256 short chain dehydrogenase; Provisional; Region: PRK12937 884204014257 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 884204014258 NADP binding site [chemical binding]; other site 884204014259 homodimer interface [polypeptide binding]; other site 884204014260 active site 884204014261 substrate binding site [chemical binding]; other site 884204014262 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 884204014263 CoA-transferase family III; Region: CoA_transf_3; pfam02515 884204014264 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 884204014265 Prostaglandin dehydrogenases; Region: PGDH; cd05288 884204014266 NAD(P) binding site [chemical binding]; other site 884204014267 substrate binding site [chemical binding]; other site 884204014268 dimer interface [polypeptide binding]; other site 884204014269 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 884204014270 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 884204014271 dimer interface [polypeptide binding]; other site 884204014272 active site 884204014273 metal binding site [ion binding]; metal-binding site 884204014274 Peptidase M66; Region: Peptidase_M66; pfam10462 884204014275 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 884204014276 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 884204014277 Domain of unknown function (DUF802); Region: DUF802; pfam05650 884204014278 hypothetical protein; Provisional; Region: PRK09040 884204014279 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204014280 ligand binding site [chemical binding]; other site 884204014281 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 884204014282 Condensation domain; Region: Condensation; pfam00668 884204014283 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204014284 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204014285 acyl-activating enzyme (AAE) consensus motif; other site 884204014286 AMP binding site [chemical binding]; other site 884204014287 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014288 MbtH-like protein; Region: MbtH; pfam03621 884204014289 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204014290 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; cl17904 884204014291 Condensation domain; Region: Condensation; pfam00668 884204014292 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204014293 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204014294 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204014295 acyl-activating enzyme (AAE) consensus motif; other site 884204014296 AMP binding site [chemical binding]; other site 884204014297 Condensation domain; Region: Condensation; pfam00668 884204014298 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204014299 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204014300 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204014301 acyl-activating enzyme (AAE) consensus motif; other site 884204014302 AMP binding site [chemical binding]; other site 884204014303 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014304 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 884204014305 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 884204014306 active site 884204014307 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 884204014308 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 884204014309 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 884204014310 KR domain; Region: KR; pfam08659 884204014311 putative NADP binding site [chemical binding]; other site 884204014312 active site 884204014313 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204014314 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 884204014315 Biofilm formation and stress response factor; Region: BsmA; pfam10014 884204014316 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204014317 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204014318 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 884204014319 active site 884204014320 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204014321 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 884204014322 active site 884204014323 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 884204014324 acyl-CoA synthetase; Validated; Region: PRK05850 884204014325 acyl-activating enzyme (AAE) consensus motif; other site 884204014326 active site 884204014327 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204014328 RNA polymerase factor sigma-70; Validated; Region: PRK09047 884204014329 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 884204014330 DNA binding residues [nucleotide binding] 884204014331 Uncharacterized conserved protein [Function unknown]; Region: COG1739 884204014332 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 884204014333 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 884204014334 EamA-like transporter family; Region: EamA; pfam00892 884204014335 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 884204014336 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 884204014337 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 884204014338 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204014339 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204014340 threonine dehydratase; Reviewed; Region: PRK09224 884204014341 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 884204014342 tetramer interface [polypeptide binding]; other site 884204014343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204014344 catalytic residue [active] 884204014345 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 884204014346 putative Ile/Val binding site [chemical binding]; other site 884204014347 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 884204014348 putative Ile/Val binding site [chemical binding]; other site 884204014349 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 884204014350 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 884204014351 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 884204014352 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 884204014353 linker region; other site 884204014354 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204014355 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 884204014356 putative acyl-acceptor binding pocket; other site 884204014357 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 884204014358 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_C39C; cd02419 884204014359 putative active site [active] 884204014360 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 884204014361 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 884204014362 Walker A/P-loop; other site 884204014363 ATP binding site [chemical binding]; other site 884204014364 Q-loop/lid; other site 884204014365 ABC transporter signature motif; other site 884204014366 Walker B; other site 884204014367 D-loop; other site 884204014368 H-loop/switch region; other site 884204014369 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 884204014370 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 884204014371 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 884204014372 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 884204014373 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 884204014374 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 884204014375 ATP binding site [chemical binding]; other site 884204014376 putative Mg++ binding site [ion binding]; other site 884204014377 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 884204014378 nucleotide binding region [chemical binding]; other site 884204014379 ATP-binding site [chemical binding]; other site 884204014380 DEAD/H associated; Region: DEAD_assoc; pfam08494 884204014381 putative transporter; Provisional; Region: PRK11021 884204014382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 884204014383 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 884204014384 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 884204014385 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 884204014386 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 884204014387 S-adenosylmethionine binding site [chemical binding]; other site 884204014388 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 884204014389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204014390 metal binding site [ion binding]; metal-binding site 884204014391 active site 884204014392 I-site; other site 884204014393 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 884204014394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204014395 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 884204014396 dimerization interface [polypeptide binding]; other site 884204014397 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 884204014398 heterodimer interface [polypeptide binding]; other site 884204014399 multimer interface [polypeptide binding]; other site 884204014400 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 884204014401 active site 884204014402 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 884204014403 active site 884204014404 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 884204014405 SxDxEG motif; other site 884204014406 active site 884204014407 metal binding site [ion binding]; metal-binding site 884204014408 homopentamer interface [polypeptide binding]; other site 884204014409 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 884204014410 homotetramer interface [polypeptide binding]; other site 884204014411 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 884204014412 cleavage site 884204014413 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 884204014414 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 884204014415 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 884204014416 dimer interface [polypeptide binding]; other site 884204014417 conserved gate region; other site 884204014418 putative PBP binding loops; other site 884204014419 ABC-ATPase subunit interface; other site 884204014420 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 884204014421 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 884204014422 dimer interface [polypeptide binding]; other site 884204014423 conserved gate region; other site 884204014424 putative PBP binding loops; other site 884204014425 ABC-ATPase subunit interface; other site 884204014426 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 884204014427 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 884204014428 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 884204014429 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204014430 Walker A/P-loop; other site 884204014431 ATP binding site [chemical binding]; other site 884204014432 Q-loop/lid; other site 884204014433 ABC transporter signature motif; other site 884204014434 Walker B; other site 884204014435 D-loop; other site 884204014436 H-loop/switch region; other site 884204014437 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 884204014438 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 884204014439 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204014440 Walker A/P-loop; other site 884204014441 ATP binding site [chemical binding]; other site 884204014442 Q-loop/lid; other site 884204014443 ABC transporter signature motif; other site 884204014444 Walker B; other site 884204014445 D-loop; other site 884204014446 H-loop/switch region; other site 884204014447 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 884204014448 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 884204014449 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 884204014450 catalytic nucleophile [active] 884204014451 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 884204014452 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 884204014453 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 884204014454 putative active site [active] 884204014455 BCCT family transporter; Region: BCCT; pfam02028 884204014456 Beta-lactamase; Region: Beta-lactamase; pfam00144 884204014457 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 884204014458 Phosphoesterase family; Region: Phosphoesterase; pfam04185 884204014459 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 884204014460 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 884204014461 active site 884204014462 HIGH motif; other site 884204014463 nucleotide binding site [chemical binding]; other site 884204014464 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 884204014465 active site 884204014466 KMSKS motif; other site 884204014467 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 884204014468 tRNA binding surface [nucleotide binding]; other site 884204014469 anticodon binding site; other site 884204014470 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 884204014471 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 884204014472 EamA-like transporter family; Region: EamA; pfam00892 884204014473 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 884204014474 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 884204014475 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 884204014476 FAD binding domain; Region: FAD_binding_4; pfam01565 884204014477 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 884204014478 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204014479 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 884204014480 S-adenosylmethionine binding site [chemical binding]; other site 884204014481 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 884204014482 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204014483 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204014484 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 884204014485 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 884204014486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204014487 catalytic residue [active] 884204014488 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 884204014489 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 884204014490 putative DNA binding site [nucleotide binding]; other site 884204014491 putative Zn2+ binding site [ion binding]; other site 884204014492 AsnC family; Region: AsnC_trans_reg; pfam01037 884204014493 LabA_like proteins; Region: LabA_like; cd06167 884204014494 putative metal binding site [ion binding]; other site 884204014495 Uncharacterized conserved protein [Function unknown]; Region: COG1432 884204014496 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 884204014497 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 884204014498 putative substrate translocation pore; other site 884204014499 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 884204014500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204014501 DNA-binding site [nucleotide binding]; DNA binding site 884204014502 UTRA domain; Region: UTRA; pfam07702 884204014503 benzoate transport; Region: 2A0115; TIGR00895 884204014504 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 884204014505 putative substrate translocation pore; other site 884204014506 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 884204014507 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 884204014508 active site 884204014509 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 884204014510 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 884204014511 active site 884204014512 metal binding site [ion binding]; metal-binding site 884204014513 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 884204014514 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 884204014515 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 884204014516 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 884204014517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204014518 Coenzyme A binding pocket [chemical binding]; other site 884204014519 Predicted transporter component [General function prediction only]; Region: COG2391 884204014520 Sulphur transport; Region: Sulf_transp; pfam04143 884204014521 Predicted transporter component [General function prediction only]; Region: COG2391 884204014522 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 884204014523 dimerization interface [polypeptide binding]; other site 884204014524 putative DNA binding site [nucleotide binding]; other site 884204014525 putative Zn2+ binding site [ion binding]; other site 884204014526 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 884204014527 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 884204014528 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 884204014529 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204014530 catalytic residue [active] 884204014531 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 884204014532 non-specific DNA binding site [nucleotide binding]; other site 884204014533 salt bridge; other site 884204014534 sequence-specific DNA binding site [nucleotide binding]; other site 884204014535 serine O-acetyltransferase; Region: cysE; TIGR01172 884204014536 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 884204014537 trimer interface [polypeptide binding]; other site 884204014538 active site 884204014539 substrate binding site [chemical binding]; other site 884204014540 CoA binding site [chemical binding]; other site 884204014541 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 884204014542 active site residue [active] 884204014543 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 884204014544 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 884204014545 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 884204014546 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204014547 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204014548 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204014549 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 884204014550 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 884204014551 Ligand binding site; other site 884204014552 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 884204014553 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 884204014554 putative substrate translocation pore; other site 884204014555 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 884204014556 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 884204014557 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 884204014558 active site 884204014559 TDP-binding site; other site 884204014560 acceptor substrate-binding pocket; other site 884204014561 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 884204014562 transcriptional regulator BetI; Validated; Region: PRK00767 884204014563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204014564 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 884204014565 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 884204014566 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 884204014567 NAD(P) binding site [chemical binding]; other site 884204014568 catalytic residues [active] 884204014569 choline dehydrogenase; Validated; Region: PRK02106 884204014570 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 884204014571 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 884204014572 benzoate transport; Region: 2A0115; TIGR00895 884204014573 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 884204014574 putative substrate translocation pore; other site 884204014575 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 884204014576 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 884204014577 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 884204014578 active site 884204014579 phosphorylation site [posttranslational modification] 884204014580 intermolecular recognition site; other site 884204014581 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 884204014582 PAS fold; Region: PAS_3; pfam08447 884204014583 putative active site [active] 884204014584 heme pocket [chemical binding]; other site 884204014585 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 884204014586 Histidine kinase; Region: HisKA_3; pfam07730 884204014587 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 884204014588 ATP binding site [chemical binding]; other site 884204014589 Mg2+ binding site [ion binding]; other site 884204014590 G-X-G motif; other site 884204014591 Response regulator receiver domain; Region: Response_reg; pfam00072 884204014592 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 884204014593 active site 884204014594 phosphorylation site [posttranslational modification] 884204014595 intermolecular recognition site; other site 884204014596 dimerization interface [polypeptide binding]; other site 884204014597 CHASE3 domain; Region: CHASE3; pfam05227 884204014598 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 884204014599 PAS domain; Region: PAS_9; pfam13426 884204014600 putative active site [active] 884204014601 heme pocket [chemical binding]; other site 884204014602 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 884204014603 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 884204014604 putative active site [active] 884204014605 heme pocket [chemical binding]; other site 884204014606 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 884204014607 dimer interface [polypeptide binding]; other site 884204014608 phosphorylation site [posttranslational modification] 884204014609 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 884204014610 ATP binding site [chemical binding]; other site 884204014611 Mg2+ binding site [ion binding]; other site 884204014612 G-X-G motif; other site 884204014613 OsmC-like protein; Region: OsmC; cl00767 884204014614 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 884204014615 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 884204014616 putative ligand binding site [chemical binding]; other site 884204014617 NAD binding site [chemical binding]; other site 884204014618 catalytic site [active] 884204014619 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 884204014620 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 884204014621 DNA-binding site [nucleotide binding]; DNA binding site 884204014622 RNA-binding motif; other site 884204014623 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 884204014624 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 884204014625 active site 884204014626 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 884204014627 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 884204014628 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 884204014629 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204014630 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 884204014631 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 884204014632 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 884204014633 hydroxyglutarate oxidase; Provisional; Region: PRK11728 884204014634 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 884204014635 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 884204014636 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 884204014637 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 884204014638 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 884204014639 conserved cys residue [active] 884204014640 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204014641 hypothetical protein; Provisional; Region: PRK11239 884204014642 Protein of unknown function, DUF480; Region: DUF480; pfam04337 884204014643 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 884204014644 GSH binding site (G-site) [chemical binding]; other site 884204014645 C-terminal domain interface [polypeptide binding]; other site 884204014646 dimer interface [polypeptide binding]; other site 884204014647 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 884204014648 dimer interface [polypeptide binding]; other site 884204014649 N-terminal domain interface [polypeptide binding]; other site 884204014650 substrate binding pocket (H-site) [chemical binding]; other site 884204014651 Low affinity iron permease; Region: Iron_permease; pfam04120 884204014652 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 884204014653 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 884204014654 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 884204014655 Domain of unknown function (DUF305); Region: DUF305; pfam03713 884204014656 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 884204014657 MgtC family; Region: MgtC; pfam02308 884204014658 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 884204014659 putative active site [active] 884204014660 catalytic site [active] 884204014661 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 884204014662 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 884204014663 putative active site [active] 884204014664 catalytic site [active] 884204014665 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 884204014666 Uncharacterized conserved protein [Function unknown]; Region: COG0398 884204014667 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 884204014668 putative catalytic site [active] 884204014669 putative metal binding site [ion binding]; other site 884204014670 putative phosphate binding site [ion binding]; other site 884204014671 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 884204014672 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 884204014673 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 884204014674 type II secretion system protein D; Region: type_II_gspD; TIGR02517 884204014675 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204014676 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204014677 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 884204014678 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204014679 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 884204014680 type III secretion protein HrpB7; Region: HrpB7; TIGR02559 884204014681 type III secretion system ATPase; Provisional; Region: PRK09099 884204014682 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 884204014683 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 884204014684 Walker A motif; other site 884204014685 ATP binding site [chemical binding]; other site 884204014686 Walker B motif; other site 884204014687 type III secretion system protein HrpB; Validated; Region: PRK09098 884204014688 Flagellar assembly protein FliH; Region: FliH; pfam02108 884204014689 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 884204014690 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 884204014691 type III secretion protein HrpB2; Region: HrpB2; TIGR02558 884204014692 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 884204014693 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 884204014694 TPR motif; other site 884204014695 binding surface 884204014696 type III secretion system protein HrcU; Validated; Region: PRK09108 884204014697 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 884204014698 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 884204014699 FHIPEP family; Region: FHIPEP; pfam00771 884204014700 type III secretion protein HpaP; Region: HpaP; TIGR02557 884204014701 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 884204014702 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 884204014703 type III secretion system protein YscR; Provisional; Region: PRK12797 884204014704 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 884204014705 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 884204014706 Tir chaperone protein (CesT) family; Region: CesT; cl08444 884204014707 Cupin domain; Region: Cupin_2; cl17218 884204014708 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 884204014709 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 884204014710 Transcriptional regulators [Transcription]; Region: FadR; COG2186 884204014711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204014712 DNA-binding site [nucleotide binding]; DNA binding site 884204014713 FCD domain; Region: FCD; cl11656 884204014714 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 884204014715 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 884204014716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 884204014717 putative aldolase; Validated; Region: PRK08130 884204014718 intersubunit interface [polypeptide binding]; other site 884204014719 active site 884204014720 Zn2+ binding site [ion binding]; other site 884204014721 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 884204014722 D-galactonate transporter; Region: 2A0114; TIGR00893 884204014723 putative substrate translocation pore; other site 884204014724 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 884204014725 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 884204014726 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 884204014727 putative NAD(P) binding site [chemical binding]; other site 884204014728 active site 884204014729 putative substrate binding site [chemical binding]; other site 884204014730 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 884204014731 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 884204014732 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 884204014733 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 884204014734 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 884204014735 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 884204014736 conserved cys residue [active] 884204014737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204014738 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 884204014739 dimer interface [polypeptide binding]; other site 884204014740 conserved gate region; other site 884204014741 putative PBP binding loops; other site 884204014742 ABC-ATPase subunit interface; other site 884204014743 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 884204014744 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 884204014745 Walker A/P-loop; other site 884204014746 ATP binding site [chemical binding]; other site 884204014747 Q-loop/lid; other site 884204014748 ABC transporter signature motif; other site 884204014749 Walker B; other site 884204014750 D-loop; other site 884204014751 H-loop/switch region; other site 884204014752 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 884204014753 Predicted flavoprotein [General function prediction only]; Region: COG0431 884204014754 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 884204014755 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 884204014756 dimerization interface [polypeptide binding]; other site 884204014757 putative DNA binding site [nucleotide binding]; other site 884204014758 putative Zn2+ binding site [ion binding]; other site 884204014759 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_20; cd07254 884204014760 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204014761 putative metal binding site [ion binding]; other site 884204014762 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 884204014763 Low molecular weight phosphatase family; Region: LMWPc; cd00115 884204014764 active site 884204014765 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 884204014766 arsenical-resistance protein; Region: acr3; TIGR00832 884204014767 YadA-like C-terminal region; Region: YadA; pfam03895 884204014768 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 884204014769 binding surface 884204014770 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 884204014771 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 884204014772 Haemagglutinin; Region: HIM; pfam05662 884204014773 YadA-like C-terminal region; Region: YadA; pfam03895 884204014774 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 884204014775 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 884204014776 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 884204014777 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 884204014778 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 884204014779 ATP-grasp domain; Region: ATP-grasp_4; cl17255 884204014780 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 884204014781 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 884204014782 carboxyltransferase (CT) interaction site; other site 884204014783 biotinylation site [posttranslational modification]; other site 884204014784 enoyl-CoA hydratase; Provisional; Region: PRK05995 884204014785 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 884204014786 substrate binding site [chemical binding]; other site 884204014787 oxyanion hole (OAH) forming residues; other site 884204014788 trimer interface [polypeptide binding]; other site 884204014789 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 884204014790 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 884204014791 isovaleryl-CoA dehydrogenase; Region: PLN02519 884204014792 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 884204014793 substrate binding site [chemical binding]; other site 884204014794 FAD binding site [chemical binding]; other site 884204014795 catalytic base [active] 884204014796 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204014797 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204014798 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 884204014799 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 884204014800 Multicopper oxidase; Region: Cu-oxidase; pfam00394 884204014801 Cytochrome c; Region: Cytochrom_C; pfam00034 884204014802 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 884204014803 [2Fe-2S] cluster binding site [ion binding]; other site 884204014804 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 884204014805 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 884204014806 alpha subunit interface [polypeptide binding]; other site 884204014807 active site 884204014808 substrate binding site [chemical binding]; other site 884204014809 Fe binding site [ion binding]; other site 884204014810 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 884204014811 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 884204014812 dimer interface [polypeptide binding]; other site 884204014813 active site 884204014814 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 884204014815 catalytic residues [active] 884204014816 substrate binding site [chemical binding]; other site 884204014817 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 884204014818 Cupin-like domain; Region: Cupin_8; pfam13621 884204014819 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 884204014820 benzoate transport; Region: 2A0115; TIGR00895 884204014821 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 884204014822 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 884204014823 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 884204014824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204014825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204014826 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204014827 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 884204014828 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 884204014829 dimer interface [polypeptide binding]; other site 884204014830 phosphorylation site [posttranslational modification] 884204014831 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 884204014832 ATP binding site [chemical binding]; other site 884204014833 Mg2+ binding site [ion binding]; other site 884204014834 G-X-G motif; other site 884204014835 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204014836 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 884204014837 active site 884204014838 phosphorylation site [posttranslational modification] 884204014839 intermolecular recognition site; other site 884204014840 dimerization interface [polypeptide binding]; other site 884204014841 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 884204014842 DNA binding site [nucleotide binding] 884204014843 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 884204014844 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 884204014845 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 884204014846 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 884204014847 Flavodoxin; Region: Flavodoxin_1; pfam00258 884204014848 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_like2; cd06201 884204014849 FAD binding pocket [chemical binding]; other site 884204014850 FAD binding motif [chemical binding]; other site 884204014851 catalytic residues [active] 884204014852 NAD binding pocket [chemical binding]; other site 884204014853 phosphate binding motif [ion binding]; other site 884204014854 beta-alpha-beta structure motif; other site 884204014855 ApbE family; Region: ApbE; pfam02424 884204014856 ApbE family; Region: ApbE; pfam02424 884204014857 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 884204014858 aldehyde dehydrogenase family 7 member; Region: PLN02315 884204014859 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 884204014860 tetrameric interface [polypeptide binding]; other site 884204014861 NAD binding site [chemical binding]; other site 884204014862 catalytic residues [active] 884204014863 aminotransferase A; Validated; Region: PRK07683 884204014864 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 884204014865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204014866 homodimer interface [polypeptide binding]; other site 884204014867 catalytic residue [active] 884204014868 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 884204014869 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 884204014870 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204014871 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 884204014872 dimerization interface [polypeptide binding]; other site 884204014873 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 884204014874 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 884204014875 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 884204014876 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204014877 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204014878 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 884204014879 putative active site [active] 884204014880 catalytic site [active] 884204014881 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 884204014882 putative active site [active] 884204014883 catalytic site [active] 884204014884 PLD-like domain; Region: PLDc_2; pfam13091 884204014885 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 884204014886 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 884204014887 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 884204014888 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 884204014889 D-galactonate transporter; Region: 2A0114; TIGR00893 884204014890 putative substrate translocation pore; other site 884204014891 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 884204014892 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 884204014893 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 884204014894 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 884204014895 Transcriptional regulators [Transcription]; Region: GntR; COG1802 884204014896 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204014897 DNA-binding site [nucleotide binding]; DNA binding site 884204014898 FCD domain; Region: FCD; pfam07729 884204014899 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 884204014900 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 884204014901 putative active site pocket [active] 884204014902 putative metal binding site [ion binding]; other site 884204014903 putative oxidoreductase; Provisional; Region: PRK10083 884204014904 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 884204014905 putative NAD(P) binding site [chemical binding]; other site 884204014906 catalytic Zn binding site [ion binding]; other site 884204014907 structural Zn binding site [ion binding]; other site 884204014908 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 884204014909 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 884204014910 homodimer interface [polypeptide binding]; other site 884204014911 NAD binding pocket [chemical binding]; other site 884204014912 ATP binding pocket [chemical binding]; other site 884204014913 Mg binding site [ion binding]; other site 884204014914 active-site loop [active] 884204014915 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204014916 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204014917 hypothetical protein; Provisional; Region: PRK02399 884204014918 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 884204014919 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 884204014920 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 884204014921 putative hydrophobic ligand binding site [chemical binding]; other site 884204014922 protein interface [polypeptide binding]; other site 884204014923 gate; other site 884204014924 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 884204014925 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 884204014926 Multicopper oxidase; Region: Cu-oxidase; pfam00394 884204014927 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204014928 Cytochrome c; Region: Cytochrom_C; pfam00034 884204014929 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 884204014930 Uncharacterized conserved protein [Function unknown]; Region: COG1262 884204014931 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 884204014932 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 884204014933 Cu(I) binding site [ion binding]; other site 884204014934 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 884204014935 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 884204014936 amidase catalytic site [active] 884204014937 Zn binding residues [ion binding]; other site 884204014938 substrate binding site [chemical binding]; other site 884204014939 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 884204014940 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 884204014941 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 884204014942 trimer interface [polypeptide binding]; other site 884204014943 Haemagglutinin; Region: HIM; pfam05662 884204014944 YadA-like C-terminal region; Region: YadA; pfam03895 884204014945 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 884204014946 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 884204014947 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204014948 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 884204014949 active site 884204014950 phosphorylation site [posttranslational modification] 884204014951 intermolecular recognition site; other site 884204014952 dimerization interface [polypeptide binding]; other site 884204014953 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 884204014954 DNA binding site [nucleotide binding] 884204014955 MASE1; Region: MASE1; cl17823 884204014956 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 884204014957 dimer interface [polypeptide binding]; other site 884204014958 phosphorylation site [posttranslational modification] 884204014959 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 884204014960 ATP binding site [chemical binding]; other site 884204014961 G-X-G motif; other site 884204014962 Protein of unknown function (DUF770); Region: DUF770; pfam05591 884204014963 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 884204014964 Protein of unknown function (DUF877); Region: DUF877; pfam05943 884204014965 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 884204014966 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 884204014967 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 884204014968 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 884204014969 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 884204014970 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 884204014971 Walker A motif; other site 884204014972 ATP binding site [chemical binding]; other site 884204014973 Walker B motif; other site 884204014974 arginine finger; other site 884204014975 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 884204014976 Walker A motif; other site 884204014977 ATP binding site [chemical binding]; other site 884204014978 Walker B motif; other site 884204014979 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 884204014980 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 884204014981 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204014982 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204014983 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 884204014984 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 884204014985 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204014986 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 884204014987 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204014988 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204014989 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 884204014990 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 884204014991 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 884204014992 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 884204014993 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 884204014994 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 884204014995 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 884204014996 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 884204014997 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 884204014998 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 884204014999 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 884204015000 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 884204015001 Bacterial Ig-like domain; Region: Big_5; pfam13205 884204015002 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly...; Region: Peptidase_C19; cl02553 884204015003 active site 884204015004 GTP cyclohydrolase I; Reviewed; Region: PRK12606 884204015005 GTP cyclohydrolase I; Provisional; Region: PLN03044 884204015006 active site 884204015007 Winged helix-turn helix; Region: HTH_29; pfam13551 884204015008 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204015009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204015010 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204015011 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 884204015012 active site 884204015013 phosphorylation site [posttranslational modification] 884204015014 intermolecular recognition site; other site 884204015015 dimerization interface [polypeptide binding]; other site 884204015016 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 884204015017 DNA binding residues [nucleotide binding] 884204015018 dimerization interface [polypeptide binding]; other site 884204015019 chaperone protein SicP; Provisional; Region: PRK15329 884204015020 SicP binding; Region: SicP-binding; pfam09119 884204015021 type III secretion protein BopE; Provisional; Region: PRK15278 884204015022 SopE GEF domain; Region: SopE_GEF; pfam07487 884204015023 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 884204015024 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 884204015025 N-acetyl-D-glucosamine binding site [chemical binding]; other site 884204015026 catalytic residue [active] 884204015027 Phosphopantetheine attachment site; Region: PP-binding; cl09936 884204015028 type III effector protein IpaD/SipD/SspD; Region: SipD_IpaD_SspD; TIGR02553 884204015029 H-NS histone family; Region: Histone_HNS; pfam00816 884204015030 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204015031 Salmonella-Shigella invasin protein C (IpaC_SipC); Region: IpaC_SipC; pfam09599 884204015032 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 884204015033 chaperone protein SicA; Provisional; Region: PRK15331 884204015034 Tetratricopeptide repeat; Region: TPR_3; pfam07720 884204015035 Tetratricopeptide repeat; Region: TPR_3; pfam07720 884204015036 type III secretion system protein SpaS; Validated; Region: PRK08156 884204015037 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 884204015038 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 884204015039 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 884204015040 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 884204015041 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 884204015042 ATP synthase SpaL; Validated; Region: PRK08149 884204015043 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 884204015044 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 884204015045 Walker A motif; other site 884204015046 ATP binding site [chemical binding]; other site 884204015047 Walker B motif; other site 884204015048 Invasion protein B family; Region: Invas_SpaK; cl04129 884204015049 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 884204015050 type III secretion system protein InvA; Provisional; Region: PRK15337 884204015051 type III secretion regulator YopN/LcrE/InvE/MxiC; Region: LcrE; TIGR02568 884204015052 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204015053 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204015054 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 884204015055 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 884204015056 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204015057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204015058 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 884204015059 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 884204015060 Type III secretion needle MxiH like; Region: MxiH; cl09641 884204015061 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 884204015062 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 884204015063 type III secretion apparatus protein OrgA/MxiK; Region: OrgA_MxiK; TIGR02555 884204015064 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 884204015065 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; cl17355 884204015066 DNA binding site [nucleotide binding] 884204015067 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 884204015068 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 884204015069 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 884204015070 active site 884204015071 Zn binding site [ion binding]; other site 884204015072 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 884204015073 MarR family; Region: MarR_2; cl17246 884204015074 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 884204015075 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204015076 dimer interface [polypeptide binding]; other site 884204015077 putative metal binding site [ion binding]; other site 884204015078 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 884204015079 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 884204015080 putative substrate translocation pore; other site 884204015081 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204015082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204015083 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 884204015084 dimerization interface [polypeptide binding]; other site 884204015085 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 884204015086 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 884204015087 phosphate binding site [ion binding]; other site 884204015088 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 884204015089 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 884204015090 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 884204015091 peptidase domain interface [polypeptide binding]; other site 884204015092 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 884204015093 active site 884204015094 catalytic triad [active] 884204015095 calcium binding site [ion binding]; other site 884204015096 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204015097 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204015098 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 884204015099 putative DNA binding site [nucleotide binding]; other site 884204015100 putative Zn2+ binding site [ion binding]; other site 884204015101 AsnC family; Region: AsnC_trans_reg; pfam01037 884204015102 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 884204015103 putative hydrophobic ligand binding site [chemical binding]; other site 884204015104 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 884204015105 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 884204015106 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 884204015107 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 884204015108 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204015109 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 884204015110 putative AMP binding site [chemical binding]; other site 884204015111 putative active site [active] 884204015112 acyl-activating enzyme (AAE) consensus motif; other site 884204015113 putative CoA binding site [chemical binding]; other site 884204015114 Autoinducer binding domain; Region: Autoind_bind; pfam03472 884204015115 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 884204015116 DNA binding residues [nucleotide binding] 884204015117 dimerization interface [polypeptide binding]; other site 884204015118 Autoinducer synthetase; Region: Autoind_synth; cl17404 884204015119 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 884204015120 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 884204015121 putative active site [active] 884204015122 putative FMN binding site [chemical binding]; other site 884204015123 putative substrate binding site [chemical binding]; other site 884204015124 putative catalytic residue [active] 884204015125 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 884204015126 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 884204015127 dimer interface [polypeptide binding]; other site 884204015128 conserved gate region; other site 884204015129 putative PBP binding loops; other site 884204015130 ABC-ATPase subunit interface; other site 884204015131 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 884204015132 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 884204015133 Walker A/P-loop; other site 884204015134 ATP binding site [chemical binding]; other site 884204015135 Q-loop/lid; other site 884204015136 ABC transporter signature motif; other site 884204015137 Walker B; other site 884204015138 D-loop; other site 884204015139 H-loop/switch region; other site 884204015140 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 884204015141 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 884204015142 substrate binding pocket [chemical binding]; other site 884204015143 membrane-bound complex binding site; other site 884204015144 hinge residues; other site 884204015145 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 884204015146 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 884204015147 active site 884204015148 iron coordination sites [ion binding]; other site 884204015149 substrate binding pocket [chemical binding]; other site 884204015150 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 884204015151 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 884204015152 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 884204015153 DXD motif; other site 884204015154 PilZ domain; Region: PilZ; pfam07238 884204015155 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 884204015156 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 884204015157 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 884204015158 endo-1,4-D-glucanase; Provisional; Region: PRK11097 884204015159 cellulose synthase regulator protein; Provisional; Region: PRK11114 884204015160 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 884204015161 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 884204015162 non-specific DNA binding site [nucleotide binding]; other site 884204015163 salt bridge; other site 884204015164 sequence-specific DNA binding site [nucleotide binding]; other site 884204015165 HipA N-terminal domain; Region: couple_hipA; TIGR03071 884204015166 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 884204015167 HipA-like N-terminal domain; Region: HipA_N; pfam07805 884204015168 HipA-like C-terminal domain; Region: HipA_C; pfam07804 884204015169 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204015170 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204015171 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 884204015172 dimerization interface [polypeptide binding]; other site 884204015173 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 884204015174 agmatinase; Region: agmatinase; TIGR01230 884204015175 oligomer interface [polypeptide binding]; other site 884204015176 putative active site [active] 884204015177 Mn binding site [ion binding]; other site 884204015178 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204015179 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 884204015180 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 884204015181 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 884204015182 PilM; Region: PilM; pfam07419 884204015183 PilS N terminal; Region: PilS; pfam08805 884204015184 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204015185 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204015186 Type II/IV secretion system protein; Region: T2SE; pfam00437 884204015187 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 884204015188 Walker A motif; other site 884204015189 ATP binding site [chemical binding]; other site 884204015190 Walker B motif; other site 884204015191 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 884204015192 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 884204015193 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 884204015194 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 884204015195 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 884204015196 Walker A motif; other site 884204015197 ATP binding site [chemical binding]; other site 884204015198 Walker B motif; other site 884204015199 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 884204015200 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 884204015201 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 884204015202 active site 884204015203 phosphorylation site [posttranslational modification] 884204015204 intermolecular recognition site; other site 884204015205 dimerization interface [polypeptide binding]; other site 884204015206 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 884204015207 DNA binding site [nucleotide binding] 884204015208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204015209 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 884204015210 ATP binding site [chemical binding]; other site 884204015211 Mg2+ binding site [ion binding]; other site 884204015212 G-X-G motif; other site 884204015213 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 884204015214 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 884204015215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204015216 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204015217 Tir chaperone protein (CesT) family; Region: CesT; cl08444 884204015218 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 884204015219 type III secretion system protein YscR; Provisional; Region: PRK12797 884204015220 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 884204015221 Type III secretion protein (HpaP); Region: HpaP; cl17849 884204015222 type III secretion protein, HrcV family; Region: hrcV; TIGR01399 884204015223 FHIPEP family; Region: FHIPEP; pfam00771 884204015224 type III secretion system protein HrcU; Validated; Region: PRK09108 884204015225 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 884204015226 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 884204015227 type III secretion protein HrpB2; Region: HrpB2; TIGR02558 884204015228 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 884204015229 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 884204015230 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 884204015231 type III secretion system protein HrpB; Validated; Region: PRK09098 884204015232 Flagellar assembly protein FliH; Region: FliH; pfam02108 884204015233 type III secretion system ATPase; Provisional; Region: PRK09099 884204015234 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 884204015235 Walker A motif; other site 884204015236 ATP binding site [chemical binding]; other site 884204015237 Walker B motif; other site 884204015238 type III secretion protein HrpB7; Region: HrpB7; TIGR02559 884204015239 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 884204015240 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 884204015241 substrate binding pocket [chemical binding]; other site 884204015242 active site 884204015243 iron coordination sites [ion binding]; other site 884204015244 Condensation domain; Region: Condensation; pfam00668 884204015245 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204015246 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015247 acyl-activating enzyme (AAE) consensus motif; other site 884204015248 AMP binding site [chemical binding]; other site 884204015249 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015250 Condensation domain; Region: Condensation; pfam00668 884204015251 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204015252 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204015253 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015254 acyl-activating enzyme (AAE) consensus motif; other site 884204015255 AMP binding site [chemical binding]; other site 884204015256 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015257 Condensation domain; Region: Condensation; pfam00668 884204015258 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204015259 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204015260 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015261 acyl-activating enzyme (AAE) consensus motif; other site 884204015262 AMP binding site [chemical binding]; other site 884204015263 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015264 Condensation domain; Region: Condensation; pfam00668 884204015265 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204015266 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204015267 acyl-activating enzyme (AAE) consensus motif; other site 884204015268 AMP binding site [chemical binding]; other site 884204015269 active site 884204015270 CoA binding site [chemical binding]; other site 884204015271 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015272 Condensation domain; Region: Condensation; pfam00668 884204015273 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204015274 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204015275 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 884204015276 acyl-activating enzyme (AAE) consensus motif; other site 884204015277 AMP binding site [chemical binding]; other site 884204015278 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015279 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 884204015280 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 884204015281 Condensation domain; Region: Condensation; pfam00668 884204015282 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015283 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204015284 acyl-activating enzyme (AAE) consensus motif; other site 884204015285 AMP binding site [chemical binding]; other site 884204015286 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015287 Condensation domain; Region: Condensation; pfam00668 884204015288 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204015289 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204015290 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015291 acyl-activating enzyme (AAE) consensus motif; other site 884204015292 AMP binding site [chemical binding]; other site 884204015293 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015294 Condensation domain; Region: Condensation; pfam00668 884204015295 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015296 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204015297 acyl-activating enzyme (AAE) consensus motif; other site 884204015298 AMP binding site [chemical binding]; other site 884204015299 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015300 Condensation domain; Region: Condensation; pfam00668 884204015301 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204015302 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204015303 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015304 acyl-activating enzyme (AAE) consensus motif; other site 884204015305 AMP binding site [chemical binding]; other site 884204015306 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015307 Condensation domain; Region: Condensation; pfam00668 884204015308 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204015309 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015310 acyl-activating enzyme (AAE) consensus motif; other site 884204015311 AMP binding site [chemical binding]; other site 884204015312 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015313 Condensation domain; Region: Condensation; pfam00668 884204015314 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204015315 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015316 acyl-activating enzyme (AAE) consensus motif; other site 884204015317 AMP binding site [chemical binding]; other site 884204015318 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015319 Condensation domain; Region: Condensation; pfam00668 884204015320 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 884204015321 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 884204015322 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015323 acyl-activating enzyme (AAE) consensus motif; other site 884204015324 AMP binding site [chemical binding]; other site 884204015325 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015326 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 884204015327 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 884204015328 inhibitor-cofactor binding pocket; inhibition site 884204015329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204015330 catalytic residue [active] 884204015331 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 884204015332 putative substrate translocation pore; other site 884204015333 pyruvate dehydrogenase; Provisional; Region: PRK09124 884204015334 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 884204015335 PYR/PP interface [polypeptide binding]; other site 884204015336 tetramer interface [polypeptide binding]; other site 884204015337 dimer interface [polypeptide binding]; other site 884204015338 TPP binding site [chemical binding]; other site 884204015339 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204015340 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 884204015341 TPP-binding site [chemical binding]; other site 884204015342 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 884204015343 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 884204015344 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 884204015345 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 884204015346 putative active site [active] 884204015347 putative catalytic site [active] 884204015348 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 884204015349 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204015350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204015351 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 884204015352 putative dimerization interface [polypeptide binding]; other site 884204015353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204015354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204015355 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 884204015356 putative effector binding pocket; other site 884204015357 dimerization interface [polypeptide binding]; other site 884204015358 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 884204015359 putative substrate translocation pore; other site 884204015360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 884204015361 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 884204015362 ATP binding site [chemical binding]; other site 884204015363 Mg2+ binding site [ion binding]; other site 884204015364 G-X-G motif; other site 884204015365 Uncharacterized conserved protein [Function unknown]; Region: COG3287 884204015366 FIST N domain; Region: FIST; pfam08495 884204015367 FIST C domain; Region: FIST_C; pfam10442 884204015368 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 884204015369 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 884204015370 active site 884204015371 phosphorylation site [posttranslational modification] 884204015372 intermolecular recognition site; other site 884204015373 dimerization interface [polypeptide binding]; other site 884204015374 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 884204015375 Zn2+ binding site [ion binding]; other site 884204015376 Mg2+ binding site [ion binding]; other site 884204015377 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 884204015378 Ricin-type beta-trefoil; Region: RICIN; smart00458 884204015379 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; cd00161 884204015380 putative sugar binding sites [chemical binding]; other site 884204015381 Q-X-W motif; other site 884204015382 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 884204015383 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; cd00161 884204015384 putative sugar binding sites [chemical binding]; other site 884204015385 Q-X-W motif; other site 884204015386 Kelch motif; Region: Kelch_6; pfam13964 884204015387 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 884204015388 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 884204015389 Cu(I) binding site [ion binding]; other site 884204015390 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 884204015391 active site 884204015392 nucleophile elbow; other site 884204015393 benzoate transport; Region: 2A0115; TIGR00895 884204015394 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 884204015395 Cytochrome P450; Region: p450; cl12078 884204015396 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 884204015397 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 884204015398 FMN-binding pocket [chemical binding]; other site 884204015399 flavin binding motif; other site 884204015400 phosphate binding motif [ion binding]; other site 884204015401 beta-alpha-beta structure motif; other site 884204015402 NAD binding pocket [chemical binding]; other site 884204015403 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 884204015404 catalytic loop [active] 884204015405 iron binding site [ion binding]; other site 884204015406 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 884204015407 H+ Antiporter protein; Region: 2A0121; TIGR00900 884204015408 putative substrate translocation pore; other site 884204015409 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 884204015410 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 884204015411 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 884204015412 Amidase; Region: Amidase; cl11426 884204015413 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 884204015414 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 884204015415 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 884204015416 G1 box; other site 884204015417 putative GEF interaction site [polypeptide binding]; other site 884204015418 GTP/Mg2+ binding site [chemical binding]; other site 884204015419 Switch I region; other site 884204015420 G2 box; other site 884204015421 G3 box; other site 884204015422 Switch II region; other site 884204015423 G4 box; other site 884204015424 G5 box; other site 884204015425 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 884204015426 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 884204015427 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 884204015428 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 884204015429 selenocysteine synthase; Provisional; Region: PRK04311 884204015430 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 884204015431 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204015432 catalytic residue [active] 884204015433 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 884204015434 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 884204015435 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 884204015436 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 884204015437 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 884204015438 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 884204015439 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 884204015440 molybdopterin cofactor binding site; other site 884204015441 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 884204015442 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 884204015443 molybdopterin cofactor binding site; other site 884204015444 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 884204015445 Uncharacterized conserved protein [Function unknown]; Region: COG1434 884204015446 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 884204015447 putative active site [active] 884204015448 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 884204015449 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 884204015450 substrate binding pocket [chemical binding]; other site 884204015451 membrane-bound complex binding site; other site 884204015452 hinge residues; other site 884204015453 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 884204015454 dimer interface [polypeptide binding]; other site 884204015455 conserved gate region; other site 884204015456 putative PBP binding loops; other site 884204015457 ABC-ATPase subunit interface; other site 884204015458 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 884204015459 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 884204015460 Walker A/P-loop; other site 884204015461 ATP binding site [chemical binding]; other site 884204015462 Q-loop/lid; other site 884204015463 ABC transporter signature motif; other site 884204015464 Walker B; other site 884204015465 D-loop; other site 884204015466 H-loop/switch region; other site 884204015467 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 884204015468 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 884204015469 active site 884204015470 non-prolyl cis peptide bond; other site 884204015471 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 884204015472 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 884204015473 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 884204015474 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 884204015475 substrate binding pocket [chemical binding]; other site 884204015476 membrane-bound complex binding site; other site 884204015477 hinge residues; other site 884204015478 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 884204015479 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 884204015480 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 884204015481 putative active site [active] 884204015482 Zn binding site [ion binding]; other site 884204015483 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 884204015484 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204015485 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 884204015486 trimer interface [polypeptide binding]; other site 884204015487 eyelet of channel; other site 884204015488 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 884204015489 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 884204015490 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 884204015491 active site 884204015492 tetramer interface; other site 884204015493 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 884204015494 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204015495 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 884204015496 putative ADP-binding pocket [chemical binding]; other site 884204015497 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 884204015498 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204015499 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 884204015500 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 884204015501 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 884204015502 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 884204015503 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 884204015504 NADP-binding site; other site 884204015505 homotetramer interface [polypeptide binding]; other site 884204015506 substrate binding site [chemical binding]; other site 884204015507 homodimer interface [polypeptide binding]; other site 884204015508 active site 884204015509 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 884204015510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204015511 NAD(P) binding site [chemical binding]; other site 884204015512 active site 884204015513 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 884204015514 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 884204015515 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 884204015516 homodimer interface [polypeptide binding]; other site 884204015517 substrate-cofactor binding pocket; other site 884204015518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204015519 catalytic residue [active] 884204015520 amidophosphoribosyltransferase; Provisional; Region: PRK09246 884204015521 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 884204015522 active site 884204015523 tetramer interface [polypeptide binding]; other site 884204015524 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 884204015525 active site 884204015526 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 884204015527 Colicin V production protein; Region: Colicin_V; pfam02674 884204015528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 884204015529 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 884204015530 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 884204015531 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 884204015532 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 884204015533 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 884204015534 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 884204015535 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 884204015536 substrate binding site [chemical binding]; other site 884204015537 active site 884204015538 catalytic residues [active] 884204015539 heterodimer interface [polypeptide binding]; other site 884204015540 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 884204015541 DNA methylase; Region: N6_N4_Mtase; pfam01555 884204015542 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 884204015543 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 884204015544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204015545 catalytic residue [active] 884204015546 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 884204015547 active site 884204015548 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 884204015549 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 884204015550 dimerization interface 3.5A [polypeptide binding]; other site 884204015551 active site 884204015552 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 884204015553 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 884204015554 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 884204015555 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 884204015556 tartrate dehydrogenase; Region: TTC; TIGR02089 884204015557 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 884204015558 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 884204015559 substrate binding site [chemical binding]; other site 884204015560 Predicted small secreted protein [Function unknown]; Region: COG5510 884204015561 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 884204015562 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 884204015563 substrate binding site [chemical binding]; other site 884204015564 ligand binding site [chemical binding]; other site 884204015565 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 884204015566 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 884204015567 active site 884204015568 non-prolyl cis peptide bond; other site 884204015569 cyclase homology domain; Region: CHD; cd07302 884204015570 nucleotidyl binding site; other site 884204015571 metal binding site [ion binding]; metal-binding site 884204015572 dimer interface [polypeptide binding]; other site 884204015573 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204015574 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 884204015575 putative DNA binding site [nucleotide binding]; other site 884204015576 putative Zn2+ binding site [ion binding]; other site 884204015577 AsnC family; Region: AsnC_trans_reg; pfam01037 884204015578 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 884204015579 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 884204015580 dimer interface [polypeptide binding]; other site 884204015581 TPP-binding site [chemical binding]; other site 884204015582 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 884204015583 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 884204015584 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 884204015585 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204015586 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 884204015587 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204015588 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 884204015589 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 884204015590 dimer interface [polypeptide binding]; other site 884204015591 active site 884204015592 citrylCoA binding site [chemical binding]; other site 884204015593 NADH binding [chemical binding]; other site 884204015594 cationic pore residues; other site 884204015595 oxalacetate/citrate binding site [chemical binding]; other site 884204015596 coenzyme A binding site [chemical binding]; other site 884204015597 catalytic triad [active] 884204015598 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 884204015599 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 884204015600 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 884204015601 L-aspartate oxidase; Provisional; Region: PRK06175 884204015602 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 884204015603 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 884204015604 SdhC subunit interface [polypeptide binding]; other site 884204015605 proximal heme binding site [chemical binding]; other site 884204015606 cardiolipin binding site; other site 884204015607 Iron-sulfur protein interface; other site 884204015608 proximal quinone binding site [chemical binding]; other site 884204015609 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 884204015610 Iron-sulfur protein interface; other site 884204015611 proximal quinone binding site [chemical binding]; other site 884204015612 SdhD (CybS) interface [polypeptide binding]; other site 884204015613 proximal heme binding site [chemical binding]; other site 884204015614 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 884204015615 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204015616 DNA-binding site [nucleotide binding]; DNA binding site 884204015617 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 884204015618 malate dehydrogenase; Provisional; Region: PRK05442 884204015619 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 884204015620 NAD(P) binding site [chemical binding]; other site 884204015621 dimer interface [polypeptide binding]; other site 884204015622 malate binding site [chemical binding]; other site 884204015623 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 884204015624 2-methylcitrate dehydratase; Region: prpD; TIGR02330 884204015625 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 884204015626 aconitate hydratase; Provisional; Region: acnA; PRK12881 884204015627 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 884204015628 substrate binding site [chemical binding]; other site 884204015629 ligand binding site [chemical binding]; other site 884204015630 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 884204015631 substrate binding site [chemical binding]; other site 884204015632 haemagglutination activity domain; Region: Haemagg_act; pfam05860 884204015633 Inositol polyphosphate kinase; Region: IPK; cl12283 884204015634 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 884204015635 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 884204015636 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 884204015637 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 884204015638 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 884204015639 Cytochrome c [Energy production and conversion]; Region: COG3258 884204015640 Cytochrome c; Region: Cytochrom_C; pfam00034 884204015641 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 884204015642 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 884204015643 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 884204015644 peptidase domain interface [polypeptide binding]; other site 884204015645 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 884204015646 active site 884204015647 catalytic triad [active] 884204015648 calcium binding site [ion binding]; other site 884204015649 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 884204015650 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 884204015651 putative PBP binding loops; other site 884204015652 dimer interface [polypeptide binding]; other site 884204015653 ABC-ATPase subunit interface; other site 884204015654 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 884204015655 dimer interface [polypeptide binding]; other site 884204015656 conserved gate region; other site 884204015657 putative PBP binding loops; other site 884204015658 ABC-ATPase subunit interface; other site 884204015659 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 884204015660 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 884204015661 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 884204015662 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204015663 Walker A/P-loop; other site 884204015664 ATP binding site [chemical binding]; other site 884204015665 Q-loop/lid; other site 884204015666 ABC transporter signature motif; other site 884204015667 Walker B; other site 884204015668 D-loop; other site 884204015669 H-loop/switch region; other site 884204015670 TOBE domain; Region: TOBE_2; pfam08402 884204015671 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 884204015672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204015673 DNA-binding site [nucleotide binding]; DNA binding site 884204015674 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 884204015675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204015676 homodimer interface [polypeptide binding]; other site 884204015677 catalytic residue [active] 884204015678 lipase chaperone; Provisional; Region: PRK01294 884204015679 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 884204015680 Lipase (class 2); Region: Lipase_2; pfam01674 884204015681 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 884204015682 PGAP1-like protein; Region: PGAP1; pfam07819 884204015683 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 884204015684 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 884204015685 N-terminal plug; other site 884204015686 ligand-binding site [chemical binding]; other site 884204015687 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 884204015688 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 884204015689 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 884204015690 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 884204015691 E3 interaction surface; other site 884204015692 lipoyl attachment site [posttranslational modification]; other site 884204015693 Cupin domain; Region: Cupin_2; cl17218 884204015694 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 884204015695 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 884204015696 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 884204015697 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 884204015698 Protein of unknown function (DUF938); Region: DUF938; pfam06080 884204015699 NAD-dependent deacetylase; Provisional; Region: PRK05333 884204015700 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 884204015701 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 884204015702 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 884204015703 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 884204015704 S-adenosylmethionine binding site [chemical binding]; other site 884204015705 Methyltransferase domain; Region: Methyltransf_31; pfam13847 884204015706 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 884204015707 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 884204015708 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 884204015709 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 884204015710 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 884204015711 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204015712 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 884204015713 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 884204015714 DNA binding residues [nucleotide binding] 884204015715 DNA primase; Validated; Region: dnaG; PRK05667 884204015716 CHC2 zinc finger; Region: zf-CHC2; pfam01807 884204015717 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 884204015718 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 884204015719 active site 884204015720 metal binding site [ion binding]; metal-binding site 884204015721 interdomain interaction site; other site 884204015722 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 884204015723 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 884204015724 Yqey-like protein; Region: YqeY; pfam09424 884204015725 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 884204015726 Predicted flavoproteins [General function prediction only]; Region: COG2081 884204015727 UGMP family protein; Validated; Region: PRK09604 884204015728 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 884204015729 putative GTP cyclohydrolase; Provisional; Region: PRK13674 884204015730 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 884204015731 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 884204015732 TPP-binding site; other site 884204015733 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 884204015734 PYR/PP interface [polypeptide binding]; other site 884204015735 dimer interface [polypeptide binding]; other site 884204015736 TPP binding site [chemical binding]; other site 884204015737 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 884204015738 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 884204015739 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 884204015740 substrate binding pocket [chemical binding]; other site 884204015741 chain length determination region; other site 884204015742 substrate-Mg2+ binding site; other site 884204015743 catalytic residues [active] 884204015744 aspartate-rich region 1; other site 884204015745 active site lid residues [active] 884204015746 aspartate-rich region 2; other site 884204015747 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 884204015748 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 884204015749 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 884204015750 [2Fe-2S] cluster binding site [ion binding]; other site 884204015751 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 884204015752 alpha subunit interface [polypeptide binding]; other site 884204015753 active site 884204015754 substrate binding site [chemical binding]; other site 884204015755 Fe binding site [ion binding]; other site 884204015756 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 884204015757 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 884204015758 active site residue [active] 884204015759 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 884204015760 active site residue [active] 884204015761 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 884204015762 Predicted membrane protein [Function unknown]; Region: COG4655 884204015763 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 884204015764 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 884204015765 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204015766 DNA polymerase I; Provisional; Region: PRK05755 884204015767 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 884204015768 active site 884204015769 metal binding site 1 [ion binding]; metal-binding site 884204015770 putative 5' ssDNA interaction site; other site 884204015771 metal binding site 3; metal-binding site 884204015772 metal binding site 2 [ion binding]; metal-binding site 884204015773 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 884204015774 putative DNA binding site [nucleotide binding]; other site 884204015775 putative metal binding site [ion binding]; other site 884204015776 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 884204015777 active site 884204015778 catalytic site [active] 884204015779 substrate binding site [chemical binding]; other site 884204015780 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 884204015781 active site 884204015782 DNA binding site [nucleotide binding] 884204015783 catalytic site [active] 884204015784 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 884204015785 Uncharacterized conserved protein [Function unknown]; Region: COG1683 884204015786 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 884204015787 Phage-related protein [Function unknown]; Region: COG4695; cl01923 884204015788 potential frameshift: common BLAST hit: gi|126458012|ref|YP_001076446.1| phage integrase family site specific recombinase 884204015789 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 884204015790 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 884204015791 active site 884204015792 Int/Topo IB signature motif; other site 884204015793 AMP nucleosidase; Provisional; Region: PRK08292 884204015794 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 884204015795 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 884204015796 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 884204015797 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 884204015798 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 884204015799 putative active site [active] 884204015800 putative substrate binding site [chemical binding]; other site 884204015801 ATP binding site [chemical binding]; other site 884204015802 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 884204015803 MarR family; Region: MarR; pfam01047 884204015804 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 884204015805 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 884204015806 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 884204015807 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 884204015808 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 884204015809 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 884204015810 putative PBP binding loops; other site 884204015811 dimer interface [polypeptide binding]; other site 884204015812 ABC-ATPase subunit interface; other site 884204015813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204015814 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 884204015815 Walker A/P-loop; other site 884204015816 ATP binding site [chemical binding]; other site 884204015817 Q-loop/lid; other site 884204015818 ABC transporter signature motif; other site 884204015819 Walker B; other site 884204015820 D-loop; other site 884204015821 H-loop/switch region; other site 884204015822 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 884204015823 molybdenum-pterin binding domain; Region: Mop; TIGR00638 884204015824 TOBE domain; Region: TOBE; cl01440 884204015825 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 884204015826 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 884204015827 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 884204015828 dimer interface [polypeptide binding]; other site 884204015829 hexamer interface [polypeptide binding]; other site 884204015830 active site 2 [active] 884204015831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204015832 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 884204015833 dimerization interface [polypeptide binding]; other site 884204015834 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 884204015835 EamA-like transporter family; Region: EamA; pfam00892 884204015836 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204015837 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 884204015838 dimer interface [polypeptide binding]; other site 884204015839 phosphorylation site [posttranslational modification] 884204015840 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; cl00075 884204015841 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 884204015842 Domain of unknown function DUF21; Region: DUF21; pfam01595 884204015843 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 884204015844 Transporter associated domain; Region: CorC_HlyC; smart01091 884204015845 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 884204015846 thiamine phosphate binding site [chemical binding]; other site 884204015847 active site 884204015848 pyrophosphate binding site [ion binding]; other site 884204015849 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 884204015850 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 884204015851 active site 884204015852 catalytic site [active] 884204015853 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 884204015854 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 884204015855 S-adenosylmethionine binding site [chemical binding]; other site 884204015856 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 884204015857 putative deacylase active site [active] 884204015858 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 884204015859 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 884204015860 phosphate binding site [ion binding]; other site 884204015861 Homeodomain-like domain; Region: HTH_23; pfam13384 884204015862 Winged helix-turn helix; Region: HTH_29; pfam13551 884204015863 Winged helix-turn helix; Region: HTH_33; pfam13592 884204015864 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204015865 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 884204015866 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204015867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204015868 Autoinducer binding domain; Region: Autoind_bind; pfam03472 884204015869 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 884204015870 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 884204015871 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 884204015872 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 884204015873 active site 884204015874 catalytic residues [active] 884204015875 metal binding site [ion binding]; metal-binding site 884204015876 DmpG-like communication domain; Region: DmpG_comm; pfam07836 884204015877 acetaldehyde dehydrogenase (acetylating); Region: ac_ald_DH_ac; TIGR03215 884204015878 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 884204015879 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 884204015880 Thioesterase domain; Region: Thioesterase; pfam00975 884204015881 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 884204015882 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 884204015883 homodimer interface [polypeptide binding]; other site 884204015884 substrate-cofactor binding pocket; other site 884204015885 catalytic residue [active] 884204015886 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 884204015887 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 884204015888 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 884204015889 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 884204015890 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 884204015891 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 884204015892 acyl-activating enzyme (AAE) consensus motif; other site 884204015893 AMP binding site [chemical binding]; other site 884204015894 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 884204015895 dimerization interface [polypeptide binding]; other site 884204015896 putative DNA binding site [nucleotide binding]; other site 884204015897 putative Zn2+ binding site [ion binding]; other site 884204015898 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 884204015899 putative hydrophobic ligand binding site [chemical binding]; other site 884204015900 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 884204015901 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 884204015902 active site 884204015903 metal binding site [ion binding]; metal-binding site 884204015904 RES domain; Region: RES; smart00953 884204015905 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 884204015906 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 884204015907 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 884204015908 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 884204015909 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 884204015910 Cupin domain; Region: Cupin_2; cl17218 884204015911 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204015912 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204015913 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204015914 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 884204015915 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204015916 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 884204015917 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 884204015918 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 884204015919 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204015920 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 884204015921 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 884204015922 active site 884204015923 tyrosine kinase; Provisional; Region: PRK11519 884204015924 Chain length determinant protein; Region: Wzz; cl15801 884204015925 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 884204015926 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 884204015927 polysaccharide export protein Wza; Provisional; Region: PRK15078 884204015928 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 884204015929 SLBB domain; Region: SLBB; pfam10531 884204015930 SLBB domain; Region: SLBB; pfam10531 884204015931 Low molecular weight phosphatase family; Region: LMWPc; cl00105 884204015932 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 884204015933 active site 884204015934 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 884204015935 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 884204015936 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 884204015937 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 884204015938 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 884204015939 Bacterial sugar transferase; Region: Bac_transf; pfam02397 884204015940 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 884204015941 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 884204015942 Substrate binding site; other site 884204015943 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 884204015944 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 884204015945 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 884204015946 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 884204015947 Cysteine-rich domain; Region: CCG; pfam02754 884204015948 Cysteine-rich domain; Region: CCG; pfam02754 884204015949 Rubrerythrin [Energy production and conversion]; Region: COG1592 884204015950 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 884204015951 binuclear metal center [ion binding]; other site 884204015952 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 884204015953 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 884204015954 amidase catalytic site [active] 884204015955 Zn binding residues [ion binding]; other site 884204015956 substrate binding site [chemical binding]; other site 884204015957 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 884204015958 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 884204015959 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 884204015960 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 884204015961 putative hydrophobic ligand binding site [chemical binding]; other site 884204015962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 884204015963 YCII-related domain; Region: YCII; cl00999 884204015964 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 884204015965 generic binding surface I; other site 884204015966 generic binding surface II; other site 884204015967 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 884204015968 putative active site [active] 884204015969 putative catalytic site [active] 884204015970 putative Mg binding site IVb [ion binding]; other site 884204015971 putative phosphate binding site [ion binding]; other site 884204015972 putative DNA binding site [nucleotide binding]; other site 884204015973 putative Mg binding site IVa [ion binding]; other site 884204015974 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 884204015975 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 884204015976 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 884204015977 Domain of unknown function DUF20; Region: UPF0118; pfam01594 884204015978 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 884204015979 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 884204015980 N-terminal plug; other site 884204015981 ligand-binding site [chemical binding]; other site 884204015982 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 884204015983 putative substrate translocation pore; other site 884204015984 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 884204015985 Prostaglandin dehydrogenases; Region: PGDH; cd05288 884204015986 NAD(P) binding site [chemical binding]; other site 884204015987 substrate binding site [chemical binding]; other site 884204015988 dimer interface [polypeptide binding]; other site 884204015989 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204015990 short chain dehydrogenase; Validated; Region: PRK07069 884204015991 NAD(P) binding site [chemical binding]; other site 884204015992 active site 884204015993 short chain dehydrogenase; Provisional; Region: PRK07035 884204015994 classical (c) SDRs; Region: SDR_c; cd05233 884204015995 NAD(P) binding site [chemical binding]; other site 884204015996 active site 884204015997 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 884204015998 catalytic core [active] 884204015999 Phosphotransferase enzyme family; Region: APH; pfam01636 884204016000 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 884204016001 putative active site [active] 884204016002 putative substrate binding site [chemical binding]; other site 884204016003 ATP binding site [chemical binding]; other site 884204016004 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204016005 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204016006 active site 884204016007 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 884204016008 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 884204016009 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 884204016010 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 884204016011 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 884204016012 Walker A/P-loop; other site 884204016013 ATP binding site [chemical binding]; other site 884204016014 Q-loop/lid; other site 884204016015 ABC transporter signature motif; other site 884204016016 Walker B; other site 884204016017 D-loop; other site 884204016018 H-loop/switch region; other site 884204016019 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 884204016020 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 884204016021 conserved cys residue [active] 884204016022 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 884204016023 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 884204016024 conserved cys residue [active] 884204016025 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204016026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204016027 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 884204016028 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 884204016029 active site 884204016030 HIGH motif; other site 884204016031 dimer interface [polypeptide binding]; other site 884204016032 KMSKS motif; other site 884204016033 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 884204016034 transcriptional activator RhaR; Provisional; Region: PRK13501 884204016035 CAAX protease self-immunity; Region: Abi; pfam02517 884204016036 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; cl02915 884204016037 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 884204016038 Cl- selectivity filter; other site 884204016039 Cl- binding residues [ion binding]; other site 884204016040 pore gating glutamate residue; other site 884204016041 dimer interface [polypeptide binding]; other site 884204016042 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 884204016043 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 884204016044 motif II; other site 884204016045 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 884204016046 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 884204016047 active site 884204016048 phosphorylation site [posttranslational modification] 884204016049 intermolecular recognition site; other site 884204016050 CheB methylesterase; Region: CheB_methylest; pfam01339 884204016051 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 884204016052 putative binding surface; other site 884204016053 active site 884204016054 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 884204016055 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 884204016056 ATP binding site [chemical binding]; other site 884204016057 Mg2+ binding site [ion binding]; other site 884204016058 G-X-G motif; other site 884204016059 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 884204016060 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 884204016061 Response regulator receiver domain; Region: Response_reg; pfam00072 884204016062 active site 884204016063 phosphorylation site [posttranslational modification] 884204016064 intermolecular recognition site; other site 884204016065 dimerization interface [polypeptide binding]; other site 884204016066 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 884204016067 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 884204016068 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 884204016069 S-adenosylmethionine binding site [chemical binding]; other site 884204016070 TPR repeat; Region: TPR_11; pfam13414 884204016071 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 884204016072 binding surface 884204016073 TPR motif; other site 884204016074 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 884204016075 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 884204016076 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 884204016077 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 884204016078 dimerization interface [polypeptide binding]; other site 884204016079 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204016080 dimer interface [polypeptide binding]; other site 884204016081 putative CheW interface [polypeptide binding]; other site 884204016082 Response regulator receiver domain; Region: Response_reg; pfam00072 884204016083 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 884204016084 active site 884204016085 phosphorylation site [posttranslational modification] 884204016086 intermolecular recognition site; other site 884204016087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204016088 dimerization interface [polypeptide binding]; other site 884204016089 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 884204016090 dimer interface [polypeptide binding]; other site 884204016091 phosphorylation site [posttranslational modification] 884204016092 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 884204016093 ATP binding site [chemical binding]; other site 884204016094 Mg2+ binding site [ion binding]; other site 884204016095 G-X-G motif; other site 884204016096 (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 884204016097 active site 884204016098 catalytic site [active] 884204016099 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 884204016100 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 884204016101 NAD(P) binding site [chemical binding]; other site 884204016102 catalytic residues [active] 884204016103 acetolactate synthase; Reviewed; Region: PRK08322 884204016104 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 884204016105 PYR/PP interface [polypeptide binding]; other site 884204016106 dimer interface [polypeptide binding]; other site 884204016107 TPP binding site [chemical binding]; other site 884204016108 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 884204016109 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 884204016110 TPP-binding site [chemical binding]; other site 884204016111 dimer interface [polypeptide binding]; other site 884204016112 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 884204016113 Protein of unknown function (DUF445); Region: DUF445; pfam04286 884204016114 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 884204016115 PLD-like domain; Region: PLDc_2; pfam13091 884204016116 putative active site [active] 884204016117 catalytic site [active] 884204016118 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 884204016119 PLD-like domain; Region: PLDc_2; pfam13091 884204016120 putative active site [active] 884204016121 catalytic site [active] 884204016122 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 884204016123 HIT family signature motif; other site 884204016124 catalytic residue [active] 884204016125 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 884204016126 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204016127 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204016128 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 884204016129 [2Fe-2S] cluster binding site [ion binding]; other site 884204016130 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 884204016131 inter-subunit interface; other site 884204016132 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 884204016133 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 884204016134 putative alpha subunit interface [polypeptide binding]; other site 884204016135 putative active site [active] 884204016136 putative substrate binding site [chemical binding]; other site 884204016137 Fe binding site [ion binding]; other site 884204016138 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204016139 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 884204016140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016141 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 884204016142 dimerization interface [polypeptide binding]; other site 884204016143 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 884204016144 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 884204016145 octamer interface [polypeptide binding]; other site 884204016146 active site 884204016147 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 884204016148 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 884204016149 dimer interface [polypeptide binding]; other site 884204016150 active site 884204016151 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 884204016152 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 884204016153 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 884204016154 Subunit I/III interface [polypeptide binding]; other site 884204016155 Subunit III/IV interface [polypeptide binding]; other site 884204016156 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 884204016157 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 884204016158 D-pathway; other site 884204016159 Putative ubiquinol binding site [chemical binding]; other site 884204016160 Low-spin heme (heme b) binding site [chemical binding]; other site 884204016161 Putative water exit pathway; other site 884204016162 Binuclear center (heme o3/CuB) [ion binding]; other site 884204016163 K-pathway; other site 884204016164 Putative proton exit pathway; other site 884204016165 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 884204016166 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 884204016167 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 884204016168 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 884204016169 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 884204016170 active site 884204016171 FMN binding site [chemical binding]; other site 884204016172 2,4-decadienoyl-CoA binding site; other site 884204016173 catalytic residue [active] 884204016174 4Fe-4S cluster binding site [ion binding]; other site 884204016175 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 884204016176 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204016177 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 884204016178 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 884204016179 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 884204016180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204016181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016182 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 884204016183 dimerization interface [polypeptide binding]; other site 884204016184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204016185 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 884204016186 NAD(P) binding site [chemical binding]; other site 884204016187 active site 884204016188 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 884204016189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016190 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 884204016191 dimerizarion interface [polypeptide binding]; other site 884204016192 CrgA pocket; other site 884204016193 substrate binding pocket [chemical binding]; other site 884204016194 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 884204016195 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 884204016196 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 884204016197 putative alpha subunit interface [polypeptide binding]; other site 884204016198 putative active site [active] 884204016199 putative substrate binding site [chemical binding]; other site 884204016200 Fe binding site [ion binding]; other site 884204016201 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 884204016202 inter-subunit interface; other site 884204016203 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 884204016204 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 884204016205 catalytic loop [active] 884204016206 iron binding site [ion binding]; other site 884204016207 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 884204016208 FAD binding pocket [chemical binding]; other site 884204016209 FAD binding motif [chemical binding]; other site 884204016210 phosphate binding motif [ion binding]; other site 884204016211 beta-alpha-beta structure motif; other site 884204016212 NAD binding pocket [chemical binding]; other site 884204016213 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 884204016214 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 884204016215 putative NAD(P) binding site [chemical binding]; other site 884204016216 active site 884204016217 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 884204016218 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 884204016219 nucleophilic elbow; other site 884204016220 catalytic triad; other site 884204016221 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 884204016222 Isochorismatase family; Region: Isochorismatase; pfam00857 884204016223 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 884204016224 catalytic triad [active] 884204016225 conserved cis-peptide bond; other site 884204016226 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 884204016227 Asp-box motif; other site 884204016228 lysine transporter; Provisional; Region: PRK10836 884204016229 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 884204016230 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 884204016231 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 884204016232 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 884204016233 Beta-Casp domain; Region: Beta-Casp; smart01027 884204016234 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 884204016235 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 884204016236 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 884204016237 NAD(P) binding site [chemical binding]; other site 884204016238 homotetramer interface [polypeptide binding]; other site 884204016239 homodimer interface [polypeptide binding]; other site 884204016240 active site 884204016241 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 884204016242 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 884204016243 ligand binding site [chemical binding]; other site 884204016244 flexible hinge region; other site 884204016245 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 884204016246 putative switch regulator; other site 884204016247 non-specific DNA interactions [nucleotide binding]; other site 884204016248 DNA binding site [nucleotide binding] 884204016249 sequence specific DNA binding site [nucleotide binding]; other site 884204016250 putative cAMP binding site [chemical binding]; other site 884204016251 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 884204016252 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 884204016253 putative NAD(P) binding site [chemical binding]; other site 884204016254 putative substrate binding site [chemical binding]; other site 884204016255 catalytic Zn binding site [ion binding]; other site 884204016256 structural Zn binding site [ion binding]; other site 884204016257 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 884204016258 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 884204016259 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 884204016260 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 884204016261 BON domain; Region: BON; pfam04972 884204016262 BON domain; Region: BON; pfam04972 884204016263 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 884204016264 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 884204016265 ligand-binding site [chemical binding]; other site 884204016266 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 884204016267 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204016268 dimer interface [polypeptide binding]; other site 884204016269 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 884204016270 putative CheW interface [polypeptide binding]; other site 884204016271 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 884204016272 putative active site [active] 884204016273 putative metal binding site [ion binding]; other site 884204016274 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204016275 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 884204016276 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204016277 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 884204016278 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 884204016279 Walker A/P-loop; other site 884204016280 ATP binding site [chemical binding]; other site 884204016281 Q-loop/lid; other site 884204016282 ABC transporter signature motif; other site 884204016283 Walker B; other site 884204016284 D-loop; other site 884204016285 H-loop/switch region; other site 884204016286 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 884204016287 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 884204016288 FtsX-like permease family; Region: FtsX; pfam02687 884204016289 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 884204016290 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 884204016291 Ligand Binding Site [chemical binding]; other site 884204016292 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204016293 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 884204016294 HlyD family secretion protein; Region: HlyD; pfam00529 884204016295 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 884204016296 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 884204016297 HlyD family secretion protein; Region: HlyD_3; pfam13437 884204016298 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 884204016299 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 884204016300 Walker A/P-loop; other site 884204016301 ATP binding site [chemical binding]; other site 884204016302 Q-loop/lid; other site 884204016303 ABC transporter signature motif; other site 884204016304 Walker B; other site 884204016305 D-loop; other site 884204016306 H-loop/switch region; other site 884204016307 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 884204016308 Walker A/P-loop; other site 884204016309 ATP binding site [chemical binding]; other site 884204016310 Q-loop/lid; other site 884204016311 ABC transporter signature motif; other site 884204016312 Walker B; other site 884204016313 D-loop; other site 884204016314 H-loop/switch region; other site 884204016315 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 884204016316 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 884204016317 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 884204016318 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 884204016319 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 884204016320 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 884204016321 PAS fold; Region: PAS_4; pfam08448 884204016322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204016323 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 884204016324 dimer interface [polypeptide binding]; other site 884204016325 phosphorylation site [posttranslational modification] 884204016326 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 884204016327 ATP binding site [chemical binding]; other site 884204016328 Mg2+ binding site [ion binding]; other site 884204016329 G-X-G motif; other site 884204016330 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 884204016331 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 884204016332 active site 884204016333 phosphorylation site [posttranslational modification] 884204016334 intermolecular recognition site; other site 884204016335 dimerization interface [polypeptide binding]; other site 884204016336 Cache domain; Region: Cache_2; pfam08269 884204016337 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 884204016338 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 884204016339 dimer interface [polypeptide binding]; other site 884204016340 putative CheW interface [polypeptide binding]; other site 884204016341 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 884204016342 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 884204016343 NAD binding site [chemical binding]; other site 884204016344 substrate binding site [chemical binding]; other site 884204016345 catalytic Zn binding site [ion binding]; other site 884204016346 tetramer interface [polypeptide binding]; other site 884204016347 structural Zn binding site [ion binding]; other site 884204016348 ATP synthase; Region: ATP-synt; pfam00231 884204016349 core domain interface [polypeptide binding]; other site 884204016350 delta subunit interface [polypeptide binding]; other site 884204016351 epsilon subunit interface [polypeptide binding]; other site 884204016352 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 884204016353 type III secretion apparatus H+-transporting two-sector ATPase; Region: III_secr_ATP; TIGR02546 884204016354 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 884204016355 Walker A motif; other site 884204016356 ATP binding site [chemical binding]; other site 884204016357 Walker B motif; other site 884204016358 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 884204016359 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 884204016360 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 884204016361 F0F1 ATP synthase subunit A; Provisional; Region: PRK13421 884204016362 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 884204016363 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 884204016364 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 884204016365 gamma subunit interface [polypeptide binding]; other site 884204016366 epsilon subunit interface [polypeptide binding]; other site 884204016367 LBP interface [polypeptide binding]; other site 884204016368 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 884204016369 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 884204016370 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 884204016371 alpha subunit interaction interface [polypeptide binding]; other site 884204016372 Walker A motif; other site 884204016373 ATP binding site [chemical binding]; other site 884204016374 Walker B motif; other site 884204016375 inhibitor binding site; inhibition site 884204016376 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 884204016377 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 884204016378 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 884204016379 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 884204016380 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 884204016381 (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 884204016382 dimer interaction site [polypeptide binding]; other site 884204016383 substrate-binding tunnel; other site 884204016384 active site 884204016385 catalytic site [active] 884204016386 substrate binding site [chemical binding]; other site 884204016387 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 884204016388 acetate kinase; Provisional; Region: PRK07058 884204016389 propionate/acetate kinase; Provisional; Region: PRK12379 884204016390 6-phosphofructokinase 2; Provisional; Region: PRK10294 884204016391 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 884204016392 putative substrate binding site [chemical binding]; other site 884204016393 putative ATP binding site [chemical binding]; other site 884204016394 periplasmic protein; Provisional; Region: PRK10568 884204016395 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 884204016396 BON domain; Region: BON; pfam04972 884204016397 BON domain; Region: BON; pfam04972 884204016398 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 884204016399 active site 884204016400 catalytic motif [active] 884204016401 Zn binding site [ion binding]; other site 884204016402 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 884204016403 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 884204016404 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 884204016405 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 884204016406 deoxyribose-phosphate aldolase; Provisional; Region: PRK05283 884204016407 catalytic residue [active] 884204016408 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 884204016409 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 884204016410 Nucleoside recognition; Region: Gate; pfam07670 884204016411 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 884204016412 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 884204016413 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 884204016414 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 884204016415 putative C-terminal domain interface [polypeptide binding]; other site 884204016416 putative GSH binding site (G-site) [chemical binding]; other site 884204016417 putative dimer interface [polypeptide binding]; other site 884204016418 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 884204016419 N-terminal domain interface [polypeptide binding]; other site 884204016420 dimer interface [polypeptide binding]; other site 884204016421 substrate binding pocket (H-site) [chemical binding]; other site 884204016422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204016423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016424 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 884204016425 putative effector binding pocket; other site 884204016426 dimerization interface [polypeptide binding]; other site 884204016427 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204016428 short chain dehydrogenase; Provisional; Region: PRK06181 884204016429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204016430 NAD(P) binding site [chemical binding]; other site 884204016431 active site 884204016432 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 884204016433 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 884204016434 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204016435 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 884204016436 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204016437 metal binding site [ion binding]; metal-binding site 884204016438 active site 884204016439 I-site; other site 884204016440 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 884204016441 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 884204016442 peptidase domain interface [polypeptide binding]; other site 884204016443 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 884204016444 active site 884204016445 catalytic triad [active] 884204016446 calcium binding site [ion binding]; other site 884204016447 Phospholipid methyltransferase; Region: PEMT; cl17370 884204016448 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 884204016449 Chain length determinant protein; Region: Wzz; pfam02706 884204016450 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 884204016451 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 884204016452 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 884204016453 putative metal binding site [ion binding]; other site 884204016454 putative homodimer interface [polypeptide binding]; other site 884204016455 putative homotetramer interface [polypeptide binding]; other site 884204016456 putative homodimer-homodimer interface [polypeptide binding]; other site 884204016457 putative allosteric switch controlling residues; other site 884204016458 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 884204016459 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 884204016460 Catalytic domain, repeat 1, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_1; cd09120 884204016461 Deoxyribonuclease II; Region: DNase_II; pfam03265 884204016462 putative active site [active] 884204016463 catalytic site [active] 884204016464 Catalytic domain, repeat 2, of Deoxyribonuclease II and similar proteins; Region: PLDc_DNaseII_2; cd09121 884204016465 putative active site [active] 884204016466 catalytic site [active] 884204016467 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 884204016468 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 884204016469 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 884204016470 active site 884204016471 metal binding site [ion binding]; metal-binding site 884204016472 Ferritin-like; Region: Ferritin-like; pfam12902 884204016473 aldolase II superfamily protein; Provisional; Region: PRK07044 884204016474 intersubunit interface [polypeptide binding]; other site 884204016475 active site 884204016476 Zn2+ binding site [ion binding]; other site 884204016477 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 884204016478 putative uracil binding site [chemical binding]; other site 884204016479 putative active site [active] 884204016480 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 884204016481 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 884204016482 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 884204016483 active site 884204016484 catalytic triad [active] 884204016485 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 884204016486 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 884204016487 active site 884204016488 phosphorylation site [posttranslational modification] 884204016489 intermolecular recognition site; other site 884204016490 dimerization interface [polypeptide binding]; other site 884204016491 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 884204016492 DNA binding site [nucleotide binding] 884204016493 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 884204016494 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 884204016495 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 884204016496 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 884204016497 Phosphoesterase family; Region: Phosphoesterase; pfam04185 884204016498 Iron permease FTR1 family; Region: FTR1; cl00475 884204016499 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 884204016500 CTP synthase; Region: PyrG; TIGR00337 884204016501 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 884204016502 substrate binding pocket [chemical binding]; other site 884204016503 membrane-bound complex binding site; other site 884204016504 hinge residues; other site 884204016505 Predicted metal-binding protein [General function prediction only]; Region: COG3019 884204016506 Transposase; Region: HTH_Tnp_1; pfam01527 884204016507 Transposase, Mutator family; Region: Transposase_mut; pfam00872 884204016508 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 884204016509 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 884204016510 glutaminase active site [active] 884204016511 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 884204016512 dimer interface [polypeptide binding]; other site 884204016513 active site 884204016514 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 884204016515 dimer interface [polypeptide binding]; other site 884204016516 active site 884204016517 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 884204016518 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 884204016519 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 884204016520 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 884204016521 DXD motif; other site 884204016522 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 884204016523 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 884204016524 active site 884204016525 homodimer interface [polypeptide binding]; other site 884204016526 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 884204016527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016528 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 884204016529 dimerization interface [polypeptide binding]; other site 884204016530 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 884204016531 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 884204016532 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 884204016533 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 884204016534 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 884204016535 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204016536 catalytic residue [active] 884204016537 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 884204016538 D-mannose binding lectin; Region: B_lectin; pfam01453 884204016539 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 884204016540 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 884204016541 NAD binding site [chemical binding]; other site 884204016542 catalytic Zn binding site [ion binding]; other site 884204016543 structural Zn binding site [ion binding]; other site 884204016544 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 884204016545 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 884204016546 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204016547 catalytic residue [active] 884204016548 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 884204016549 N- and C-terminal domain interface [polypeptide binding]; other site 884204016550 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 884204016551 active site 884204016552 MgATP binding site [chemical binding]; other site 884204016553 catalytic site [active] 884204016554 metal binding site [ion binding]; metal-binding site 884204016555 xylulose binding site [chemical binding]; other site 884204016556 putative homodimer interface [polypeptide binding]; other site 884204016557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 884204016558 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 884204016559 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204016560 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204016561 active site 884204016562 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 884204016563 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 884204016564 NAD(P) binding site [chemical binding]; other site 884204016565 substrate binding site [chemical binding]; other site 884204016566 homotetramer interface [polypeptide binding]; other site 884204016567 active site 884204016568 homodimer interface [polypeptide binding]; other site 884204016569 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 884204016570 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 884204016571 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 884204016572 active site 884204016573 enoyl-CoA hydratase; Provisional; Region: PRK05995 884204016574 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 884204016575 substrate binding site [chemical binding]; other site 884204016576 oxyanion hole (OAH) forming residues; other site 884204016577 trimer interface [polypeptide binding]; other site 884204016578 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 884204016579 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 884204016580 ATP-grasp domain; Region: ATP-grasp_4; cl17255 884204016581 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 884204016582 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 884204016583 carboxyltransferase (CT) interaction site; other site 884204016584 biotinylation site [posttranslational modification]; other site 884204016585 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 884204016586 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 884204016587 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204016588 acyl-activating enzyme (AAE) consensus motif; other site 884204016589 AMP binding site [chemical binding]; other site 884204016590 active site 884204016591 CoA binding site [chemical binding]; other site 884204016592 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 884204016593 Fatty acid desaturase; Region: FA_desaturase; pfam00487 884204016594 Di-iron ligands [ion binding]; other site 884204016595 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 884204016596 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 884204016597 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 884204016598 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 884204016599 S-adenosylmethionine binding site [chemical binding]; other site 884204016600 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 884204016601 Fatty acid desaturase; Region: FA_desaturase; pfam00487 884204016602 Di-iron ligands [ion binding]; other site 884204016603 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 884204016604 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 884204016605 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; cd01292 884204016606 active site 884204016607 acyl-CoA synthetase; Validated; Region: PRK05850 884204016608 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 884204016609 acyl-activating enzyme (AAE) consensus motif; other site 884204016610 active site 884204016611 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 884204016612 CoenzymeA binding site [chemical binding]; other site 884204016613 subunit interaction site [polypeptide binding]; other site 884204016614 PHB binding site; other site 884204016615 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204016616 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 884204016617 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 884204016618 dimer interface [polypeptide binding]; other site 884204016619 ADP-ribose binding site [chemical binding]; other site 884204016620 active site 884204016621 nudix motif; other site 884204016622 metal binding site [ion binding]; metal-binding site 884204016623 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 884204016624 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 884204016625 motif II; other site 884204016626 DDE domain; Region: DDE_Tnp_IS240; pfam13610 884204016627 haemagglutination activity domain; Region: Haemagg_act; pfam05860 884204016628 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 884204016629 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 884204016630 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 884204016631 active site 884204016632 Int/Topo IB signature motif; other site 884204016633 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 884204016634 RHS Repeat; Region: RHS_repeat; pfam05593 884204016635 RHS Repeat; Region: RHS_repeat; pfam05593 884204016636 RHS Repeat; Region: RHS_repeat; pfam05593 884204016637 RHS Repeat; Region: RHS_repeat; pfam05593 884204016638 RHS Repeat; Region: RHS_repeat; pfam05593 884204016639 RHS Repeat; Region: RHS_repeat; pfam05593 884204016640 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 884204016641 RHS protein; Region: RHS; pfam03527 884204016642 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 884204016643 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 884204016644 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 884204016645 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 884204016646 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 884204016647 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 884204016648 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 884204016649 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 884204016650 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 884204016651 homotrimer interaction site [polypeptide binding]; other site 884204016652 putative active site [active] 884204016653 Transcriptional regulators [Transcription]; Region: FadR; COG2186 884204016654 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 884204016655 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 884204016656 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 884204016657 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 884204016658 HTH-like domain; Region: HTH_21; pfam13276 884204016659 Integrase core domain; Region: rve; pfam00665 884204016660 Integrase core domain; Region: rve_3; pfam13683 884204016661 Transposase; Region: HTH_Tnp_1; pfam01527 884204016662 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 884204016663 Melibiase; Region: Melibiase; pfam02065 884204016664 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 884204016665 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 884204016666 ABC-ATPase subunit interface; other site 884204016667 putative PBP binding loops; other site 884204016668 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 884204016669 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 884204016670 dimer interface [polypeptide binding]; other site 884204016671 conserved gate region; other site 884204016672 putative PBP binding loops; other site 884204016673 ABC-ATPase subunit interface; other site 884204016674 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 884204016675 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 884204016676 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204016677 ABC transporter; Region: ABC_tran; pfam00005 884204016678 Q-loop/lid; other site 884204016679 ABC transporter signature motif; other site 884204016680 Walker B; other site 884204016681 D-loop; other site 884204016682 H-loop/switch region; other site 884204016683 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 884204016684 Transcriptional regulators [Transcription]; Region: PurR; COG1609 884204016685 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 884204016686 DNA binding site [nucleotide binding] 884204016687 domain linker motif; other site 884204016688 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 884204016689 dimerization interface [polypeptide binding]; other site 884204016690 ligand binding site [chemical binding]; other site 884204016691 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 884204016692 Transposase; Region: HTH_Tnp_1; pfam01527 884204016693 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 884204016694 HTH-like domain; Region: HTH_21; pfam13276 884204016695 Integrase core domain; Region: rve; pfam00665 884204016696 Integrase core domain; Region: rve_3; pfam13683 884204016697 putative transposase OrfB; Reviewed; Region: PHA02517 884204016698 Integrase core domain; Region: rve; pfam00665 884204016699 Integrase core domain; Region: rve_3; pfam13683 884204016700 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 884204016701 Transposase; Region: HTH_Tnp_1; cl17663 884204016702 putative transposase OrfB; Reviewed; Region: PHA02517 884204016703 HTH-like domain; Region: HTH_21; pfam13276 884204016704 Integrase core domain; Region: rve; pfam00665 884204016705 Integrase core domain; Region: rve_3; pfam13683 884204016706 Transposase; Region: HTH_Tnp_1; pfam01527 884204016707 Winged helix-turn helix; Region: HTH_29; pfam13551 884204016708 HTH-like domain; Region: HTH_21; pfam13276 884204016709 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 884204016710 Integrase core domain; Region: rve; pfam00665 884204016711 Integrase core domain; Region: rve_3; pfam13683 884204016712 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 884204016713 RHS Repeat; Region: RHS_repeat; cl11982 884204016714 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 884204016715 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 884204016716 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 884204016717 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 884204016718 RHS Repeat; Region: RHS_repeat; pfam05593 884204016719 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 884204016720 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 884204016721 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 884204016722 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 884204016723 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 884204016724 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 884204016725 Walker A motif; other site 884204016726 ATP binding site [chemical binding]; other site 884204016727 Walker B motif; other site 884204016728 arginine finger; other site 884204016729 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 884204016730 Walker A motif; other site 884204016731 ATP binding site [chemical binding]; other site 884204016732 Walker B motif; other site 884204016733 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 884204016734 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 884204016735 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 884204016736 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 884204016737 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 884204016738 Protein of unknown function (DUF796); Region: DUF796; pfam05638 884204016739 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 884204016740 Protein of unknown function (DUF877); Region: DUF877; pfam05943 884204016741 Protein of unknown function (DUF770); Region: DUF770; pfam05591 884204016742 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 884204016743 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 884204016744 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 884204016745 Catalytic domain of Protein Kinases; Region: PKc; cd00180 884204016746 active site 884204016747 ATP binding site [chemical binding]; other site 884204016748 substrate binding site [chemical binding]; other site 884204016749 activation loop (A-loop); other site 884204016750 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 884204016751 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 884204016752 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 884204016753 G1 box; other site 884204016754 GTP/Mg2+ binding site [chemical binding]; other site 884204016755 G2 box; other site 884204016756 G3 box; other site 884204016757 Switch II region; other site 884204016758 G4 box; other site 884204016759 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 884204016760 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 884204016761 hypothetical protein; Provisional; Region: PRK07033 884204016762 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 884204016763 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 884204016764 ligand binding site [chemical binding]; other site 884204016765 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 884204016766 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 884204016767 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 884204016768 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 884204016769 phosphopeptide binding site; other site 884204016770 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 884204016771 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 884204016772 hypothetical protein; Provisional; Region: PRK07538 884204016773 hypothetical protein; Provisional; Region: PRK07236 884204016774 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 884204016775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 884204016776 NAD(P) binding site [chemical binding]; other site 884204016777 active site 884204016778 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 884204016779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016780 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 884204016781 dimerization interface [polypeptide binding]; other site 884204016782 substrate binding pocket [chemical binding]; other site 884204016783 D-serine dehydratase; Provisional; Region: PRK02991 884204016784 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204016785 catalytic residue [active] 884204016786 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 884204016787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016788 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 884204016789 dimerization interface [polypeptide binding]; other site 884204016790 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 884204016791 dimerization interface [polypeptide binding]; other site 884204016792 putative DNA binding site [nucleotide binding]; other site 884204016793 putative Zn2+ binding site [ion binding]; other site 884204016794 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 884204016795 active site residue [active] 884204016796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 884204016797 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 884204016798 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204016799 putative substrate translocation pore; other site 884204016800 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 884204016801 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 884204016802 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204016803 catalytic residue [active] 884204016804 metabolite-proton symporter; Region: 2A0106; TIGR00883 884204016805 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 884204016806 putative substrate translocation pore; other site 884204016807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016808 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 884204016809 dimerization interface [polypeptide binding]; other site 884204016810 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 884204016811 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 884204016812 phosphate binding site [ion binding]; other site 884204016813 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 884204016814 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 884204016815 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204016816 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 884204016817 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204016818 indole acetimide hydrolase; Validated; Region: PRK07488 884204016819 Amidase; Region: Amidase; pfam01425 884204016820 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 884204016821 CoA binding domain; Region: CoA_binding_2; pfam13380 884204016822 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 884204016823 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 884204016824 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 884204016825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204016826 Coenzyme A binding pocket [chemical binding]; other site 884204016827 H-NS histone family; Region: Histone_HNS; pfam00816 884204016828 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 884204016829 PAS fold; Region: PAS_4; pfam08448 884204016830 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204016831 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 884204016832 Walker B motif; other site 884204016833 arginine finger; other site 884204016834 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204016835 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 884204016836 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 884204016837 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 884204016838 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 884204016839 active site residue [active] 884204016840 outer membrane porin, OprD family; Region: OprD; pfam03573 884204016841 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 884204016842 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204016843 Walker A/P-loop; other site 884204016844 ATP binding site [chemical binding]; other site 884204016845 Q-loop/lid; other site 884204016846 ABC transporter signature motif; other site 884204016847 Walker B; other site 884204016848 D-loop; other site 884204016849 H-loop/switch region; other site 884204016850 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 884204016851 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 884204016852 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 884204016853 Walker A/P-loop; other site 884204016854 ATP binding site [chemical binding]; other site 884204016855 Q-loop/lid; other site 884204016856 ABC transporter signature motif; other site 884204016857 Walker B; other site 884204016858 D-loop; other site 884204016859 H-loop/switch region; other site 884204016860 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 884204016861 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 884204016862 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 884204016863 dimer interface [polypeptide binding]; other site 884204016864 conserved gate region; other site 884204016865 putative PBP binding loops; other site 884204016866 ABC-ATPase subunit interface; other site 884204016867 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 884204016868 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 884204016869 dimer interface [polypeptide binding]; other site 884204016870 conserved gate region; other site 884204016871 putative PBP binding loops; other site 884204016872 ABC-ATPase subunit interface; other site 884204016873 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 884204016874 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 884204016875 peptide binding site [polypeptide binding]; other site 884204016876 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 884204016877 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 884204016878 non-specific DNA binding site [nucleotide binding]; other site 884204016879 salt bridge; other site 884204016880 sequence-specific DNA binding site [nucleotide binding]; other site 884204016881 Cupin domain; Region: Cupin_2; pfam07883 884204016882 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 884204016883 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 884204016884 putative substrate translocation pore; other site 884204016885 POT family; Region: PTR2; cl17359 884204016886 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 884204016887 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 884204016888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016889 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 884204016890 substrate binding pocket [chemical binding]; other site 884204016891 dimerization interface [polypeptide binding]; other site 884204016892 Putative cyclase; Region: Cyclase; cl00814 884204016893 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 884204016894 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 884204016895 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 884204016896 CoA-transferase family III; Region: CoA_transf_3; pfam02515 884204016897 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 884204016898 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 884204016899 NAD(P) binding site [chemical binding]; other site 884204016900 Isochorismatase family; Region: Isochorismatase; pfam00857 884204016901 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 884204016902 catalytic triad [active] 884204016903 conserved cis-peptide bond; other site 884204016904 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 884204016905 Major Facilitator Superfamily; Region: MFS_1; pfam07690 884204016906 putative substrate translocation pore; other site 884204016907 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 884204016908 phosphate:H+ symporter; Region: 2A0109; TIGR00887 884204016909 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 884204016910 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 884204016911 putative substrate translocation pore; other site 884204016912 Putative cyclase; Region: Cyclase; cl00814 884204016913 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 884204016914 CoA-transferase family III; Region: CoA_transf_3; pfam02515 884204016915 Transcriptional regulator [Transcription]; Region: IclR; COG1414 884204016916 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 884204016917 Bacterial transcriptional regulator; Region: IclR; pfam01614 884204016918 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 884204016919 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204016920 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 884204016921 trimer interface [polypeptide binding]; other site 884204016922 eyelet of channel; other site 884204016923 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 884204016924 2-methylcitrate dehydratase; Region: prpD; TIGR02330 884204016925 OpgC protein; Region: OpgC_C; pfam10129 884204016926 Predicted permeases [General function prediction only]; Region: RarD; COG2962 884204016927 acylphosphatase; Provisional; Region: PRK14424 884204016928 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 884204016929 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 884204016930 putative NADP binding site [chemical binding]; other site 884204016931 putative substrate binding site [chemical binding]; other site 884204016932 active site 884204016933 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 884204016934 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 884204016935 active site 884204016936 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 884204016937 LytB protein; Region: LYTB; pfam02401 884204016938 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 884204016939 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 884204016940 FeS/SAM binding site; other site 884204016941 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 884204016942 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 884204016943 aminotransferase; Validated; Region: PRK07046 884204016944 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 884204016945 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 884204016946 catalytic residue [active] 884204016947 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 884204016948 sequence-specific DNA binding site [nucleotide binding]; other site 884204016949 salt bridge; other site 884204016950 Protein of unknown function (DUF466); Region: DUF466; pfam04328 884204016951 carbon starvation protein A; Provisional; Region: PRK15015 884204016952 Carbon starvation protein CstA; Region: CstA; pfam02554 884204016953 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 884204016954 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 884204016955 Uncharacterized conserved protein [Function unknown]; Region: COG5476 884204016956 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 884204016957 MlrC C-terminus; Region: MlrC_C; pfam07171 884204016958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204016959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204016960 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 884204016961 dimerization interface [polypeptide binding]; other site 884204016962 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 884204016963 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 884204016964 metal binding site [ion binding]; metal-binding site 884204016965 SnoaL-like domain; Region: SnoaL_2; pfam12680 884204016966 Predicted membrane protein [Function unknown]; Region: COG2246 884204016967 GtrA-like protein; Region: GtrA; pfam04138 884204016968 Methyltransferase domain; Region: Methyltransf_23; pfam13489 884204016969 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 884204016970 S-adenosylmethionine binding site [chemical binding]; other site 884204016971 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 884204016972 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 884204016973 Ligand binding site; other site 884204016974 Putative Catalytic site; other site 884204016975 DXD motif; other site 884204016976 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 884204016977 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 884204016978 Flp/Fap pilin component; Region: Flp_Fap; cl01585 884204016979 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 884204016980 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 884204016981 active site 884204016982 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 884204016983 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 884204016984 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 884204016985 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 884204016986 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 884204016987 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 884204016988 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 884204016989 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 884204016990 TadE-like protein; Region: TadE; pfam07811 884204016991 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 884204016992 TadE-like protein; Region: TadE; pfam07811 884204016993 AAA domain; Region: AAA_31; pfam13614 884204016994 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 884204016995 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 884204016996 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 884204016997 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 884204016998 ATP binding site [chemical binding]; other site 884204016999 Walker A motif; other site 884204017000 hexamer interface [polypeptide binding]; other site 884204017001 Walker B motif; other site 884204017002 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 884204017003 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204017004 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 884204017005 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 884204017006 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 884204017007 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 884204017008 putative DNA binding site [nucleotide binding]; other site 884204017009 putative Zn2+ binding site [ion binding]; other site 884204017010 AsnC family; Region: AsnC_trans_reg; pfam01037 884204017011 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 884204017012 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 884204017013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204017014 homodimer interface [polypeptide binding]; other site 884204017015 catalytic residue [active] 884204017016 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 884204017017 homotrimer interaction site [polypeptide binding]; other site 884204017018 putative active site [active] 884204017019 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204017020 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 884204017021 trimer interface [polypeptide binding]; other site 884204017022 eyelet of channel; other site 884204017023 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 884204017024 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 884204017025 DNA-binding site [nucleotide binding]; DNA binding site 884204017026 Transcriptional regulators [Transcription]; Region: FadR; COG2186 884204017027 Uncharacterized conserved protein [Function unknown]; Region: COG5476 884204017028 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 884204017029 MlrC C-terminus; Region: MlrC_C; pfam07171 884204017030 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 884204017031 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 884204017032 putative substrate translocation pore; other site 884204017033 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204017034 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204017035 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 884204017036 dimerization interface [polypeptide binding]; other site 884204017037 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 884204017038 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 884204017039 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 884204017040 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 884204017041 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 884204017042 active site 884204017043 DNA binding site [nucleotide binding] 884204017044 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 884204017045 DNA binding site [nucleotide binding] 884204017046 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 884204017047 nucleotide binding site [chemical binding]; other site 884204017048 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 884204017049 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 884204017050 putative DNA binding site [nucleotide binding]; other site 884204017051 putative homodimer interface [polypeptide binding]; other site 884204017052 Predicted membrane protein [Function unknown]; Region: COG2323 884204017053 hydroperoxidase II; Provisional; Region: katE; PRK11249 884204017054 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 884204017055 tetramer interface [polypeptide binding]; other site 884204017056 heme binding pocket [chemical binding]; other site 884204017057 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 884204017058 domain interactions; other site 884204017059 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 884204017060 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 884204017061 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 884204017062 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 884204017063 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 884204017064 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 884204017065 dimanganese center [ion binding]; other site 884204017066 Domain of unknown function (DUF892); Region: DUF892; pfam05974 884204017067 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 884204017068 conjugal transfer protein TrbH; Provisional; Region: PRK13883 884204017069 MltA-interacting protein MipA; Region: MipA; cl01504 884204017070 FOG: CBS domain [General function prediction only]; Region: COG0517 884204017071 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 884204017072 PRC-barrel domain; Region: PRC; pfam05239 884204017073 Response regulator receiver domain; Region: Response_reg; pfam00072 884204017074 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 884204017075 active site 884204017076 phosphorylation site [posttranslational modification] 884204017077 intermolecular recognition site; other site 884204017078 dimerization interface [polypeptide binding]; other site 884204017079 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 884204017080 Fe-S cluster binding site [ion binding]; other site 884204017081 active site 884204017082 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 884204017083 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 884204017084 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 884204017085 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 884204017086 NAD binding site [chemical binding]; other site 884204017087 catalytic Zn binding site [ion binding]; other site 884204017088 structural Zn binding site [ion binding]; other site 884204017089 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 884204017090 short chain dehydrogenase; Provisional; Region: PRK06701 884204017091 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 884204017092 NAD binding site [chemical binding]; other site 884204017093 metal binding site [ion binding]; metal-binding site 884204017094 active site 884204017095 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 884204017096 short chain dehydrogenase; Provisional; Region: PRK07109 884204017097 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 884204017098 putative NAD(P) binding site [chemical binding]; other site 884204017099 active site 884204017100 BON domain; Region: BON; pfam04972 884204017101 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 884204017102 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 884204017103 putative ADP-binding pocket [chemical binding]; other site 884204017104 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 884204017105 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 884204017106 NAD binding site [chemical binding]; other site 884204017107 putative substrate binding site 2 [chemical binding]; other site 884204017108 putative substrate binding site 1 [chemical binding]; other site 884204017109 active site 884204017110 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 884204017111 PAS domain; Region: PAS_9; pfam13426 884204017112 putative active site [active] 884204017113 heme pocket [chemical binding]; other site 884204017114 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 884204017115 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 884204017116 putative active site [active] 884204017117 heme pocket [chemical binding]; other site 884204017118 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 884204017119 dimer interface [polypeptide binding]; other site 884204017120 phosphorylation site [posttranslational modification] 884204017121 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 884204017122 ATP binding site [chemical binding]; other site 884204017123 Mg2+ binding site [ion binding]; other site 884204017124 G-X-G motif; other site 884204017125 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 884204017126 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 884204017127 active site 884204017128 phosphorylation site [posttranslational modification] 884204017129 intermolecular recognition site; other site 884204017130 dimerization interface [polypeptide binding]; other site 884204017131 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 884204017132 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 884204017133 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 884204017134 active site 884204017135 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 884204017136 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 884204017137 active site 884204017138 phosphorylation site [posttranslational modification] 884204017139 intermolecular recognition site; other site 884204017140 dimerization interface [polypeptide binding]; other site 884204017141 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 884204017142 Walker A motif; other site 884204017143 ATP binding site [chemical binding]; other site 884204017144 Walker B motif; other site 884204017145 arginine finger; other site 884204017146 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 884204017147 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 884204017148 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 884204017149 Walker A motif; other site 884204017150 ATP binding site [chemical binding]; other site 884204017151 Walker B motif; other site 884204017152 arginine finger; other site 884204017153 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 884204017154 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 884204017155 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 884204017156 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 884204017157 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 884204017158 putative active site [active] 884204017159 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 884204017160 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 884204017161 active site 884204017162 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 884204017163 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 884204017164 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 884204017165 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 884204017166 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 884204017167 putative active site [active] 884204017168 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 884204017169 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 884204017170 active site 884204017171 motif I; other site 884204017172 motif II; other site 884204017173 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 884204017174 classical (c) SDRs; Region: SDR_c; cd05233 884204017175 NAD(P) binding site [chemical binding]; other site 884204017176 active site 884204017177 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 884204017178 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 884204017179 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204017180 Walker A/P-loop; other site 884204017181 ATP binding site [chemical binding]; other site 884204017182 Q-loop/lid; other site 884204017183 ABC transporter signature motif; other site 884204017184 Walker B; other site 884204017185 D-loop; other site 884204017186 H-loop/switch region; other site 884204017187 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; cl00075 884204017188 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 884204017189 Response regulator receiver domain; Region: Response_reg; pfam00072 884204017190 active site 884204017191 phosphorylation site [posttranslational modification] 884204017192 intermolecular recognition site; other site 884204017193 dimerization interface [polypeptide binding]; other site 884204017194 BON domain; Region: BON; pfam04972 884204017195 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 884204017196 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 884204017197 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 884204017198 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 884204017199 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 884204017200 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 884204017201 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 884204017202 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 884204017203 active site 884204017204 non-prolyl cis peptide bond; other site 884204017205 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 884204017206 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 884204017207 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 884204017208 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 884204017209 putative substrate translocation pore; other site 884204017210 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 884204017211 Autoinducer binding domain; Region: Autoind_bind; pfam03472 884204017212 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 884204017213 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204017214 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 884204017215 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 884204017216 E3 interaction surface; other site 884204017217 lipoyl attachment site [posttranslational modification]; other site 884204017218 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 884204017219 e3 binding domain; Region: E3_binding; pfam02817 884204017220 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 884204017221 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 884204017222 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 884204017223 alpha subunit interface [polypeptide binding]; other site 884204017224 TPP binding site [chemical binding]; other site 884204017225 heterodimer interface [polypeptide binding]; other site 884204017226 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 884204017227 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 884204017228 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 884204017229 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 884204017230 tetramer interface [polypeptide binding]; other site 884204017231 TPP-binding site [chemical binding]; other site 884204017232 heterodimer interface [polypeptide binding]; other site 884204017233 phosphorylation loop region [posttranslational modification] 884204017234 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 884204017235 putative hydrophobic ligand binding site [chemical binding]; other site 884204017236 protein interface [polypeptide binding]; other site 884204017237 gate; other site 884204017238 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 884204017239 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 884204017240 hydrophobic ligand binding site; other site 884204017241 Transcriptional regulator [Transcription]; Region: LysR; COG0583 884204017242 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 884204017243 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 884204017244 substrate binding pocket [chemical binding]; other site 884204017245 dimerization interface [polypeptide binding]; other site 884204017246 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 884204017247 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 884204017248 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 884204017249 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 884204017250 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 884204017251 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 884204017252 nucleophile elbow; other site 884204017253 Patatin phospholipase; Region: DUF3734; pfam12536 884204017254 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 884204017255 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 884204017256 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 884204017257 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 884204017258 active site 884204017259 dimer interface [polypeptide binding]; other site 884204017260 effector binding site; other site 884204017261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 884204017262 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 884204017263 AAA domain; Region: AAA_33; pfam13671 884204017264 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 884204017265 FMN binding site [chemical binding]; other site 884204017266 dimer interface [polypeptide binding]; other site 884204017267 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 884204017268 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 884204017269 Sulfate transporter family; Region: Sulfate_transp; pfam00916 884204017270 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 884204017271 FOG: CBS domain [General function prediction only]; Region: COG0517 884204017272 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 884204017273 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 884204017274 putative FMN binding site [chemical binding]; other site 884204017275 NADPH bind site [chemical binding]; other site 884204017276 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 884204017277 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 884204017278 putative dimer interface [polypeptide binding]; other site 884204017279 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204017280 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 884204017281 trimer interface [polypeptide binding]; other site 884204017282 eyelet of channel; other site 884204017283 putative acyl-CoA synthetase; Provisional; Region: PRK06018 884204017284 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 884204017285 acyl-activating enzyme (AAE) consensus motif; other site 884204017286 AMP binding site [chemical binding]; other site 884204017287 active site 884204017288 CoA binding site [chemical binding]; other site 884204017289 AAA ATPase domain; Region: AAA_16; pfam13191 884204017290 AAA domain; Region: AAA_22; pfam13401 884204017291 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204017292 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 884204017293 DNA binding residues [nucleotide binding] 884204017294 dimerization interface [polypeptide binding]; other site 884204017295 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 884204017296 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 884204017297 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 884204017298 NADP binding site [chemical binding]; other site 884204017299 dimer interface [polypeptide binding]; other site 884204017300 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 884204017301 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 884204017302 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 884204017303 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 884204017304 D-galactonate transporter; Region: 2A0114; TIGR00893 884204017305 putative substrate translocation pore; other site 884204017306 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 884204017307 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 884204017308 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 884204017309 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 884204017310 catalytic residues [active] 884204017311 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 884204017312 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 884204017313 molybdopterin cofactor binding site; other site 884204017314 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 884204017315 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 884204017316 The MopB_CT_2 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. This CD is...; Region: MopB_CT_2; cd02783 884204017317 putative molybdopterin cofactor binding site; other site 884204017318 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 884204017319 4Fe-4S binding domain; Region: Fer4; pfam00037 884204017320 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 884204017321 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 884204017322 putative active site [active] 884204017323 putative metal binding site [ion binding]; other site 884204017324 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 884204017325 Transglycosylase; Region: Transgly; pfam00912 884204017326 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 884204017327 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 884204017328 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 884204017329 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 884204017330 catalytic residues [active] 884204017331 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 884204017332 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 884204017333 trimer interface [polypeptide binding]; other site 884204017334 eyelet of channel; other site 884204017335 amidase; Provisional; Region: PRK08137 884204017336 Amidase; Region: Amidase; cl11426 884204017337 putative acetyltransferase YhhY; Provisional; Region: PRK10140 884204017338 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204017339 Coenzyme A binding pocket [chemical binding]; other site 884204017340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 884204017341 putative acetyltransferase YhhY; Provisional; Region: PRK10140 884204017342 Coenzyme A binding pocket [chemical binding]; other site 884204017343 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 884204017344 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 884204017345 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 884204017346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 884204017347 D-loop; other site 884204017348 H-loop/switch region; other site 884204017349 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 884204017350 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 884204017351 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 884204017352 Histidine kinase; Region: HisKA_3; pfam07730 884204017353 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 884204017354 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 884204017355 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 884204017356 active site 884204017357 phosphorylation site [posttranslational modification] 884204017358 intermolecular recognition site; other site 884204017359 dimerization interface [polypeptide binding]; other site 884204017360 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 884204017361 DNA binding residues [nucleotide binding] 884204017362 dimerization interface [polypeptide binding]; other site 884204017363 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 884204017364 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 884204017365 PAS domain; Region: PAS_9; pfam13426 884204017366 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 884204017367 putative active site [active] 884204017368 heme pocket [chemical binding]; other site 884204017369 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 884204017370 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204017371 metal binding site [ion binding]; metal-binding site 884204017372 active site 884204017373 I-site; other site 884204017374 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 884204017375 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 884204017376 Lipase (class 2); Region: Lipase_2; pfam01674 884204017377 PGAP1-like protein; Region: PGAP1; pfam07819 884204017378 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 884204017379 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 884204017380 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 884204017381 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 884204017382 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 884204017383 FtsX-like permease family; Region: FtsX; pfam02687 884204017384 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 884204017385 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 884204017386 Walker A/P-loop; other site 884204017387 ATP binding site [chemical binding]; other site 884204017388 Q-loop/lid; other site 884204017389 ABC transporter signature motif; other site 884204017390 Walker B; other site 884204017391 D-loop; other site 884204017392 H-loop/switch region; other site 884204017393 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 884204017394 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 884204017395 Cytochrome P450; Region: p450; cl12078 884204017396 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 884204017397 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 884204017398 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 884204017399 putative NADP binding site [chemical binding]; other site 884204017400 active site 884204017401 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 884204017402 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 884204017403 putative NAD(P) binding site [chemical binding]; other site 884204017404 active site 884204017405 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 884204017406 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 884204017407 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 884204017408 active site 884204017409 active site 884204017410 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 884204017411 active site 884204017412 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 884204017413 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 884204017414 putative NADP binding site [chemical binding]; other site 884204017415 active site 884204017416 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 884204017417 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 884204017418 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 884204017419 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 884204017420 VacJ like lipoprotein; Region: VacJ; cl01073 884204017421 hypothetical protein; Provisional; Region: PRK07483 884204017422 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 884204017423 inhibitor-cofactor binding pocket; inhibition site 884204017424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 884204017425 catalytic residue [active] 884204017426 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 884204017427 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 884204017428 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 884204017429 Walker A/P-loop; other site 884204017430 ATP binding site [chemical binding]; other site 884204017431 Q-loop/lid; other site 884204017432 ABC transporter signature motif; other site 884204017433 Walker B; other site 884204017434 D-loop; other site 884204017435 H-loop/switch region; other site 884204017436 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 884204017437 dimer interface [polypeptide binding]; other site 884204017438 conserved gate region; other site 884204017439 putative PBP binding loops; other site 884204017440 ABC-ATPase subunit interface; other site 884204017441 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 884204017442 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 884204017443 substrate binding pocket [chemical binding]; other site 884204017444 membrane-bound complex binding site; other site 884204017445 hinge residues; other site 884204017446 hypothetical protein; Provisional; Region: PRK07077 884204017447 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 884204017448 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 884204017449 Active site cavity [active] 884204017450 catalytic acid [active] 884204017451 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 884204017452 active site lid residues [active] 884204017453 substrate binding pocket [chemical binding]; other site 884204017454 catalytic residues [active] 884204017455 substrate-Mg2+ binding site; other site 884204017456 aspartate-rich region 1; other site 884204017457 aspartate-rich region 2; other site 884204017458 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 884204017459 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 884204017460 PAS fold; Region: PAS_4; pfam08448 884204017461 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 884204017462 putative active site [active] 884204017463 heme pocket [chemical binding]; other site 884204017464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 884204017465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 884204017466 metal binding site [ion binding]; metal-binding site 884204017467 active site 884204017468 I-site; other site 884204017469 Response regulator receiver domain; Region: Response_reg; pfam00072 884204017470 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 884204017471 active site 884204017472 phosphorylation site [posttranslational modification] 884204017473 intermolecular recognition site; other site 884204017474 dimerization interface [polypeptide binding]; other site 884204017475 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 884204017476 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 884204017477 dimer interface [polypeptide binding]; other site 884204017478 phosphorylation site [posttranslational modification] 884204017479 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 884204017480 ATP binding site [chemical binding]; other site 884204017481 Mg2+ binding site [ion binding]; other site 884204017482 G-X-G motif; other site 884204017483 Response regulator receiver domain; Region: Response_reg; pfam00072 884204017484 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 884204017485 active site 884204017486 phosphorylation site [posttranslational modification] 884204017487 intermolecular recognition site; other site 884204017488 dimerization interface [polypeptide binding]; other site 884204017489 Predicted flavoprotein [General function prediction only]; Region: COG0431 884204017490 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 884204017491 RNA polymerase sigma factor; Provisional; Region: PRK12545 884204017492 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 884204017493 DNA binding residues [nucleotide binding] 884204017494 Putative zinc-finger; Region: zf-HC2; pfam13490 884204017495 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 884204017496 ArsC family; Region: ArsC; pfam03960 884204017497 catalytic residues [active] 884204017498 ParA-like protein; Provisional; Region: PHA02518 884204017499 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 884204017500 P-loop; other site 884204017501 Magnesium ion binding site [ion binding]; other site 884204017502 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 884204017503 ParB-like nuclease domain; Region: ParB; smart00470 884204017504 Initiator Replication protein; Region: Rep_3; pfam01051