-- dump date 20140619_012421 -- class Genbank::misc_feature -- table misc_feature_note -- id note 398577000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 398577000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 398577000003 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 398577000004 Walker A motif; other site 398577000005 ATP binding site [chemical binding]; other site 398577000006 Walker B motif; other site 398577000007 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 398577000008 arginine finger; other site 398577000009 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 398577000010 DnaA box-binding interface [nucleotide binding]; other site 398577000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 398577000012 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 398577000013 putative DNA binding surface [nucleotide binding]; other site 398577000014 dimer interface [polypeptide binding]; other site 398577000015 beta-clamp/clamp loader binding surface; other site 398577000016 beta-clamp/translesion DNA polymerase binding surface; other site 398577000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 398577000018 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 398577000019 ATP binding site [chemical binding]; other site 398577000020 Mg2+ binding site [ion binding]; other site 398577000021 G-X-G motif; other site 398577000022 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 398577000023 anchoring element; other site 398577000024 dimer interface [polypeptide binding]; other site 398577000025 ATP binding site [chemical binding]; other site 398577000026 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 398577000027 active site 398577000028 putative metal-binding site [ion binding]; other site 398577000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398577000030 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 398577000031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577000032 Walker A/P-loop; other site 398577000033 ATP binding site [chemical binding]; other site 398577000034 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398577000035 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398577000036 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577000037 AAA domain; Region: AAA_21; pfam13304 398577000038 Walker A/P-loop; other site 398577000039 ATP binding site [chemical binding]; other site 398577000040 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 398577000041 Q-loop/lid; other site 398577000042 ABC transporter signature motif; other site 398577000043 Walker B; other site 398577000044 D-loop; other site 398577000045 H-loop/switch region; other site 398577000046 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 398577000047 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 398577000048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577000049 Walker A/P-loop; other site 398577000050 ATP binding site [chemical binding]; other site 398577000051 hypothetical protein; Provisional; Region: PRK06850 398577000052 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 398577000053 Active Sites [active] 398577000054 DNA-sulfur modification-associated; Region: DndB; cl17621 398577000055 DGQHR domain; Region: DGQHR; TIGR03187 398577000056 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 398577000057 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 398577000058 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 398577000059 putative heme binding pocket [chemical binding]; other site 398577000060 RNA polymerase sigma factor; Provisional; Region: PRK12511 398577000061 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577000062 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 398577000063 DNA binding residues [nucleotide binding] 398577000064 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 398577000065 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 398577000066 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577000067 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 398577000068 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398577000069 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398577000070 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 398577000071 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 398577000072 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 398577000073 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 398577000074 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 398577000075 Restriction endonuclease [Defense mechanisms]; Region: COG3587 398577000076 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 398577000077 ATP binding site [chemical binding]; other site 398577000078 putative Mg++ binding site [ion binding]; other site 398577000079 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 398577000080 DNA methylase; Region: N6_N4_Mtase; pfam01555 398577000081 DNA methylase; Region: N6_N4_Mtase; cl17433 398577000082 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577000083 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 398577000084 trimer interface [polypeptide binding]; other site 398577000085 eyelet of channel; other site 398577000086 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 398577000087 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 398577000088 active site 398577000089 phosphorylation site [posttranslational modification] 398577000090 intermolecular recognition site; other site 398577000091 dimerization interface [polypeptide binding]; other site 398577000092 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 398577000093 DNA binding site [nucleotide binding] 398577000094 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398577000095 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398577000096 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 398577000097 dimer interface [polypeptide binding]; other site 398577000098 phosphorylation site [posttranslational modification] 398577000099 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 398577000100 ATP binding site [chemical binding]; other site 398577000101 Mg2+ binding site [ion binding]; other site 398577000102 G-X-G motif; other site 398577000103 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398577000104 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 398577000105 dimer interface [polypeptide binding]; other site 398577000106 conserved gate region; other site 398577000107 putative PBP binding loops; other site 398577000108 ABC-ATPase subunit interface; other site 398577000109 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398577000110 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398577000111 Walker A/P-loop; other site 398577000112 ATP binding site [chemical binding]; other site 398577000113 Q-loop/lid; other site 398577000114 ABC transporter signature motif; other site 398577000115 Walker B; other site 398577000116 D-loop; other site 398577000117 H-loop/switch region; other site 398577000118 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 398577000119 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398577000120 membrane-bound complex binding site; other site 398577000121 hinge residues; other site 398577000122 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 398577000123 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 398577000124 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 398577000125 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 398577000126 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 398577000127 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 398577000128 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 398577000129 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 398577000130 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 398577000131 LrgA family; Region: LrgA; pfam03788 398577000132 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577000133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577000134 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 398577000135 putative dimerization interface [polypeptide binding]; other site 398577000136 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577000137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577000138 putative substrate translocation pore; other site 398577000139 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577000140 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577000141 MarR family; Region: MarR_2; cl17246 398577000142 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577000143 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 398577000144 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 398577000145 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 398577000146 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 398577000147 GspL periplasmic domain; Region: GspL_C; pfam12693 398577000148 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 398577000149 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 398577000150 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 398577000151 Type II transport protein GspH; Region: GspH; pfam12019 398577000152 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 398577000153 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 398577000154 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 398577000155 type II secretion system protein F; Region: GspF; TIGR02120 398577000156 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577000157 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577000158 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 398577000159 type II secretion system protein E; Region: type_II_gspE; TIGR02533 398577000160 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 398577000161 Walker A motif; other site 398577000162 ATP binding site [chemical binding]; other site 398577000163 Walker B motif; other site 398577000164 type II secretion system protein D; Region: type_II_gspD; TIGR02517 398577000165 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398577000166 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398577000167 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398577000168 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398577000169 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398577000170 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 398577000171 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577000172 catalytic residue [active] 398577000173 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398577000174 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398577000175 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 398577000176 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 398577000177 IHF dimer interface [polypeptide binding]; other site 398577000178 IHF - DNA interface [nucleotide binding]; other site 398577000179 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 398577000180 Uncharacterized conserved protein [Function unknown]; Region: COG4121 398577000181 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577000182 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 398577000183 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 398577000184 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398577000185 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 398577000186 putative DNA binding site [nucleotide binding]; other site 398577000187 putative Zn2+ binding site [ion binding]; other site 398577000188 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 398577000189 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 398577000190 catalytic triad [active] 398577000191 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398577000192 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 398577000193 active site 398577000194 FMN binding site [chemical binding]; other site 398577000195 substrate binding site [chemical binding]; other site 398577000196 homotetramer interface [polypeptide binding]; other site 398577000197 catalytic residue [active] 398577000198 Proteins containing SET domain [General function prediction only]; Region: COG2940 398577000199 SET domain; Region: SET; pfam00856 398577000200 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398577000201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577000202 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 398577000203 dimer interface [polypeptide binding]; other site 398577000204 phosphorylation site [posttranslational modification] 398577000205 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 398577000206 ATP binding site [chemical binding]; other site 398577000207 Mg2+ binding site [ion binding]; other site 398577000208 G-X-G motif; other site 398577000209 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577000210 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 398577000211 active site 398577000212 phosphorylation site [posttranslational modification] 398577000213 intermolecular recognition site; other site 398577000214 dimerization interface [polypeptide binding]; other site 398577000215 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 398577000216 DNA binding site [nucleotide binding] 398577000217 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 398577000218 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 398577000219 aromatic arch; other site 398577000220 DCoH dimer interaction site [polypeptide binding]; other site 398577000221 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 398577000222 DCoH tetramer interaction site [polypeptide binding]; other site 398577000223 substrate binding site [chemical binding]; other site 398577000224 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 398577000225 cofactor binding site; other site 398577000226 metal binding site [ion binding]; metal-binding site 398577000227 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577000228 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 398577000229 putative DNA binding site [nucleotide binding]; other site 398577000230 putative Zn2+ binding site [ion binding]; other site 398577000231 AsnC family; Region: AsnC_trans_reg; pfam01037 398577000232 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 398577000233 putative active site [active] 398577000234 putative metal binding residues [ion binding]; other site 398577000235 signature motif; other site 398577000236 putative triphosphate binding site [ion binding]; other site 398577000237 dimer interface [polypeptide binding]; other site 398577000238 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577000239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577000240 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 398577000241 dimerization interface [polypeptide binding]; other site 398577000242 choline dehydrogenase; Validated; Region: PRK02106 398577000243 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577000244 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398577000245 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398577000246 Walker A/P-loop; other site 398577000247 ATP binding site [chemical binding]; other site 398577000248 Q-loop/lid; other site 398577000249 ABC transporter signature motif; other site 398577000250 Walker B; other site 398577000251 D-loop; other site 398577000252 H-loop/switch region; other site 398577000253 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398577000254 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398577000255 Walker A/P-loop; other site 398577000256 ATP binding site [chemical binding]; other site 398577000257 Q-loop/lid; other site 398577000258 ABC transporter signature motif; other site 398577000259 Walker B; other site 398577000260 D-loop; other site 398577000261 H-loop/switch region; other site 398577000262 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398577000263 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 398577000264 putative ligand binding site [chemical binding]; other site 398577000265 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577000266 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 398577000267 TM-ABC transporter signature motif; other site 398577000268 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 398577000269 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577000270 TM-ABC transporter signature motif; other site 398577000271 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577000272 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 398577000273 putative ligand binding site [chemical binding]; other site 398577000274 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 398577000275 TM-ABC transporter signature motif; other site 398577000276 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398577000277 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 398577000278 TM-ABC transporter signature motif; other site 398577000279 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398577000280 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398577000281 Walker A/P-loop; other site 398577000282 ATP binding site [chemical binding]; other site 398577000283 Q-loop/lid; other site 398577000284 ABC transporter signature motif; other site 398577000285 Walker B; other site 398577000286 D-loop; other site 398577000287 H-loop/switch region; other site 398577000288 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398577000289 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398577000290 Walker A/P-loop; other site 398577000291 ATP binding site [chemical binding]; other site 398577000292 Q-loop/lid; other site 398577000293 ABC transporter signature motif; other site 398577000294 Walker B; other site 398577000295 D-loop; other site 398577000296 H-loop/switch region; other site 398577000297 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 398577000298 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 398577000299 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 398577000300 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 398577000301 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 398577000302 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 398577000303 S-adenosylmethionine binding site [chemical binding]; other site 398577000304 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398577000305 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 398577000306 P-loop; other site 398577000307 Magnesium ion binding site [ion binding]; other site 398577000308 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 398577000309 Magnesium ion binding site [ion binding]; other site 398577000310 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 398577000311 ParB-like nuclease domain; Region: ParBc; pfam02195 398577000312 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 398577000313 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 398577000314 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 398577000315 ATP synthase I chain; Region: ATP_synt_I; cl09170 398577000316 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 398577000317 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 398577000318 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 398577000319 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 398577000320 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 398577000321 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 398577000322 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 398577000323 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 398577000324 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398577000325 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 398577000326 beta subunit interaction interface [polypeptide binding]; other site 398577000327 Walker A motif; other site 398577000328 ATP binding site [chemical binding]; other site 398577000329 Walker B motif; other site 398577000330 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398577000331 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 398577000332 core domain interface [polypeptide binding]; other site 398577000333 delta subunit interface [polypeptide binding]; other site 398577000334 epsilon subunit interface [polypeptide binding]; other site 398577000335 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 398577000336 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 398577000337 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 398577000338 alpha subunit interaction interface [polypeptide binding]; other site 398577000339 Walker A motif; other site 398577000340 ATP binding site [chemical binding]; other site 398577000341 Walker B motif; other site 398577000342 inhibitor binding site; inhibition site 398577000343 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 398577000344 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 398577000345 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 398577000346 gamma subunit interface [polypeptide binding]; other site 398577000347 epsilon subunit interface [polypeptide binding]; other site 398577000348 LBP interface [polypeptide binding]; other site 398577000349 AMP-binding domain protein; Validated; Region: PRK08315 398577000350 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398577000351 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 398577000352 acyl-activating enzyme (AAE) consensus motif; other site 398577000353 putative AMP binding site [chemical binding]; other site 398577000354 putative active site [active] 398577000355 putative CoA binding site [chemical binding]; other site 398577000356 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 398577000357 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577000358 substrate binding pocket [chemical binding]; other site 398577000359 membrane-bound complex binding site; other site 398577000360 hinge residues; other site 398577000361 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 398577000362 substrate binding site [chemical binding]; other site 398577000363 active site 398577000364 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 398577000365 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 398577000366 ATP binding site [chemical binding]; other site 398577000367 putative Mg++ binding site [ion binding]; other site 398577000368 helicase superfamily c-terminal domain; Region: HELICc; smart00490 398577000369 nucleotide binding region [chemical binding]; other site 398577000370 ATP-binding site [chemical binding]; other site 398577000371 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 398577000372 Predicted transcriptional regulator [Transcription]; Region: COG3905 398577000373 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 398577000374 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 398577000375 Glutamate binding site [chemical binding]; other site 398577000376 NAD binding site [chemical binding]; other site 398577000377 catalytic residues [active] 398577000378 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398577000379 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577000380 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 398577000381 dimerization interface [polypeptide binding]; other site 398577000382 ligand binding site [chemical binding]; other site 398577000383 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 398577000384 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398577000385 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 398577000386 acyl-activating enzyme (AAE) consensus motif; other site 398577000387 acyl-activating enzyme (AAE) consensus motif; other site 398577000388 putative AMP binding site [chemical binding]; other site 398577000389 putative active site [active] 398577000390 putative CoA binding site [chemical binding]; other site 398577000391 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577000392 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577000393 active site 398577000394 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577000395 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577000396 putative aminotransferase; Provisional; Region: PRK12414 398577000397 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 398577000398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577000399 homodimer interface [polypeptide binding]; other site 398577000400 catalytic residue [active] 398577000401 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398577000402 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 398577000403 substrate binding pocket [chemical binding]; other site 398577000404 membrane-bound complex binding site; other site 398577000405 hinge residues; other site 398577000406 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398577000407 FAD binding domain; Region: FAD_binding_4; pfam01565 398577000408 Predicted transcriptional regulators [Transcription]; Region: COG1695 398577000409 Transcriptional regulator PadR-like family; Region: PadR; cl17335 398577000410 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 398577000411 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 398577000412 DNA binding residues [nucleotide binding] 398577000413 dimer interface [polypeptide binding]; other site 398577000414 putative metal binding site [ion binding]; other site 398577000415 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398577000416 Heavy-metal-associated domain; Region: HMA; pfam00403 398577000417 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398577000418 Double zinc ribbon; Region: DZR; pfam12773 398577000419 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 398577000420 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 398577000421 Conserved TM helix; Region: TM_helix; pfam05552 398577000422 ethanolamine permease; Region: 2A0305; TIGR00908 398577000423 hypothetical protein; Provisional; Region: PHA02764 398577000424 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 398577000425 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 398577000426 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 398577000427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577000428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577000429 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 398577000430 putative effector binding pocket; other site 398577000431 putative dimerization interface [polypeptide binding]; other site 398577000432 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577000433 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577000434 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398577000435 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 398577000436 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577000437 NAD(P) binding site [chemical binding]; other site 398577000438 catalytic residues [active] 398577000439 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398577000440 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577000441 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577000442 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 398577000443 thiamine pyrophosphate protein; Validated; Region: PRK08199 398577000444 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398577000445 PYR/PP interface [polypeptide binding]; other site 398577000446 dimer interface [polypeptide binding]; other site 398577000447 TPP binding site [chemical binding]; other site 398577000448 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398577000449 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 398577000450 TPP-binding site [chemical binding]; other site 398577000451 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 398577000452 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 398577000453 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 398577000454 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 398577000455 Alginate lyase; Region: Alginate_lyase; pfam05426 398577000456 glycine dehydrogenase; Provisional; Region: PRK05367 398577000457 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 398577000458 tetramer interface [polypeptide binding]; other site 398577000459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577000460 catalytic residue [active] 398577000461 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 398577000462 tetramer interface [polypeptide binding]; other site 398577000463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577000464 catalytic residue [active] 398577000465 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 398577000466 lipoyl attachment site [posttranslational modification]; other site 398577000467 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 398577000468 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 398577000469 putative oxidoreductase; Provisional; Region: PRK11579 398577000470 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398577000471 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 398577000472 active site 398577000473 oxyanion hole [active] 398577000474 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 398577000475 Part of AAA domain; Region: AAA_19; pfam13245 398577000476 Family description; Region: UvrD_C_2; pfam13538 398577000477 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 398577000478 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 398577000479 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 398577000480 Divergent AAA domain; Region: AAA_4; pfam04326 398577000481 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 398577000482 Uncharacterized conserved protein [Function unknown]; Region: COG4278 398577000483 TIGR04222 domain; Region: near_uncomplex 398577000484 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 398577000485 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398577000486 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 398577000487 inhibitor-cofactor binding pocket; inhibition site 398577000488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577000489 catalytic residue [active] 398577000490 Methyltransferase domain; Region: Methyltransf_11; pfam08241 398577000491 S-adenosylmethionine binding site [chemical binding]; other site 398577000492 WbqC-like protein family; Region: WbqC; pfam08889 398577000493 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577000494 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398577000495 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577000496 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 398577000497 TPR repeat; Region: TPR_11; pfam13414 398577000498 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 398577000499 binding surface 398577000500 TPR motif; other site 398577000501 TPR repeat; Region: TPR_11; pfam13414 398577000502 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 398577000503 binding surface 398577000504 TPR motif; other site 398577000505 TPR repeat; Region: TPR_11; pfam13414 398577000506 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 398577000507 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577000508 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 398577000509 NAD binding site [chemical binding]; other site 398577000510 putative substrate binding site 2 [chemical binding]; other site 398577000511 putative substrate binding site 1 [chemical binding]; other site 398577000512 active site 398577000513 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398577000514 Methyltransferase domain; Region: Methyltransf_12; pfam08242 398577000515 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 398577000516 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 398577000517 TPR motif; other site 398577000518 binding surface 398577000519 TPR repeat; Region: TPR_11; pfam13414 398577000520 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 398577000521 binding surface 398577000522 TPR motif; other site 398577000523 TPR repeat; Region: TPR_11; pfam13414 398577000524 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 398577000525 binding surface 398577000526 TPR motif; other site 398577000527 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 398577000528 binding surface 398577000529 TPR motif; other site 398577000530 TPR repeat; Region: TPR_11; pfam13414 398577000531 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 398577000532 TPR motif; other site 398577000533 binding surface 398577000534 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398577000535 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 398577000536 TPR motif; other site 398577000537 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398577000538 binding surface 398577000539 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 398577000540 binding surface 398577000541 TPR motif; other site 398577000542 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 398577000543 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 398577000544 binding surface 398577000545 TPR motif; other site 398577000546 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 398577000547 binding surface 398577000548 TPR motif; other site 398577000549 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 398577000550 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398577000551 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 398577000552 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398577000553 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 398577000554 binding surface 398577000555 TPR motif; other site 398577000556 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 398577000557 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 398577000558 binding surface 398577000559 TPR motif; other site 398577000560 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 398577000561 binding surface 398577000562 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 398577000563 TPR motif; other site 398577000564 Flagellar protein FliT; Region: FliT; pfam05400 398577000565 flagellar capping protein; Reviewed; Region: fliD; PRK08032 398577000566 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 398577000567 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 398577000568 flagellin; Provisional; Region: PRK12802 398577000569 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398577000570 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 398577000571 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 398577000572 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 398577000573 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398577000574 nucleotide binding site [chemical binding]; other site 398577000575 putative hydrolase; Provisional; Region: PRK10976 398577000576 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 398577000577 active site 398577000578 motif I; other site 398577000579 motif II; other site 398577000580 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 398577000581 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 398577000582 amphipathic channel; other site 398577000583 Asn-Pro-Ala signature motifs; other site 398577000584 H-NS histone family; Region: Histone_HNS; pfam00816 398577000585 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577000586 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 398577000587 putative ADP-binding pocket [chemical binding]; other site 398577000588 transcriptional activator FlhD; Provisional; Region: PRK02909 398577000589 transcriptional activator FlhC; Provisional; Region: PRK12722 398577000590 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 398577000591 flagellar motor protein MotA; Validated; Region: PRK09110 398577000592 flagellar motor protein MotB; Validated; Region: motB; PRK09041 398577000593 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398577000594 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577000595 ligand binding site [chemical binding]; other site 398577000596 Response regulator receiver domain; Region: Response_reg; pfam00072 398577000597 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 398577000598 active site 398577000599 phosphorylation site [posttranslational modification] 398577000600 intermolecular recognition site; other site 398577000601 dimerization interface [polypeptide binding]; other site 398577000602 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 398577000603 putative binding surface; other site 398577000604 active site 398577000605 CheY binding; Region: CheY-binding; pfam09078 398577000606 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 398577000607 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 398577000608 ATP binding site [chemical binding]; other site 398577000609 Mg2+ binding site [ion binding]; other site 398577000610 G-X-G motif; other site 398577000611 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 398577000612 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 398577000613 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 398577000614 dimer interface [polypeptide binding]; other site 398577000615 ligand binding site [chemical binding]; other site 398577000616 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 398577000617 dimerization interface [polypeptide binding]; other site 398577000618 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577000619 dimer interface [polypeptide binding]; other site 398577000620 putative CheW interface [polypeptide binding]; other site 398577000621 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 398577000622 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 398577000623 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 398577000624 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 398577000625 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 398577000626 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 398577000627 active site 398577000628 phosphorylation site [posttranslational modification] 398577000629 intermolecular recognition site; other site 398577000630 dimerization interface [polypeptide binding]; other site 398577000631 CheB methylesterase; Region: CheB_methylest; pfam01339 398577000632 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 398577000633 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 398577000634 active site 398577000635 phosphorylation site [posttranslational modification] 398577000636 intermolecular recognition site; other site 398577000637 dimerization interface [polypeptide binding]; other site 398577000638 chemotaxis regulator CheZ; Provisional; Region: PRK11166 398577000639 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 398577000640 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 398577000641 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 398577000642 dimer interface [polypeptide binding]; other site 398577000643 Protein of unknown function (DUF805); Region: DUF805; pfam05656 398577000644 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 398577000645 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 398577000646 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 398577000647 FHIPEP family; Region: FHIPEP; pfam00771 398577000648 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 398577000649 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 398577000650 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 398577000651 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 398577000652 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577000653 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398577000654 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 398577000655 DNA binding residues [nucleotide binding] 398577000656 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 398577000657 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 398577000658 homotetramer interface [polypeptide binding]; other site 398577000659 ligand binding site [chemical binding]; other site 398577000660 catalytic site [active] 398577000661 NAD binding site [chemical binding]; other site 398577000662 Predicted membrane protein [Function unknown]; Region: COG1950 398577000663 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 398577000664 FAD binding site [chemical binding]; other site 398577000665 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398577000666 Amidase; Region: Amidase; cl11426 398577000667 Dienelactone hydrolase family; Region: DLH; pfam01738 398577000668 Nitronate monooxygenase; Region: NMO; pfam03060 398577000669 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 398577000670 FMN binding site [chemical binding]; other site 398577000671 substrate binding site [chemical binding]; other site 398577000672 putative catalytic residue [active] 398577000673 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577000674 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 398577000675 dimerization interface [polypeptide binding]; other site 398577000676 ligand binding site [chemical binding]; other site 398577000677 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577000678 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577000679 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 398577000680 H-NS histone family; Region: Histone_HNS; pfam00816 398577000681 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577000682 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398577000683 Cation efflux family; Region: Cation_efflux; pfam01545 398577000684 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577000685 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 398577000686 putative DNA binding site [nucleotide binding]; other site 398577000687 putative Zn2+ binding site [ion binding]; other site 398577000688 AsnC family; Region: AsnC_trans_reg; pfam01037 398577000689 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 398577000690 active site 398577000691 substrate binding site [chemical binding]; other site 398577000692 catalytic site [active] 398577000693 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398577000694 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 398577000695 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 398577000696 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 398577000697 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 398577000698 putative SAM binding site [chemical binding]; other site 398577000699 putative homodimer interface [polypeptide binding]; other site 398577000700 hypothetical protein; Provisional; Region: PRK14673 398577000701 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 398577000702 active site 398577000703 dimer interface [polypeptide binding]; other site 398577000704 outer membrane lipoprotein; Provisional; Region: PRK11023 398577000705 BON domain; Region: BON; pfam04972 398577000706 BON domain; Region: BON; cl02771 398577000707 Cytochrome c551/c552 [Energy production and conversion]; Region: COG4654 398577000708 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 398577000709 CGNR zinc finger; Region: zf-CGNR; pfam11706 398577000710 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 398577000711 active site 398577000712 Mn binding site [ion binding]; other site 398577000713 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 398577000714 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 398577000715 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 398577000716 active site 398577000717 tetramer interface [polypeptide binding]; other site 398577000718 D-galactonate transporter; Region: 2A0114; TIGR00893 398577000719 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577000720 putative substrate translocation pore; other site 398577000721 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 398577000722 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 398577000723 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 398577000724 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398577000725 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 398577000726 FtsX-like permease family; Region: FtsX; pfam02687 398577000727 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398577000728 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398577000729 Walker A/P-loop; other site 398577000730 ATP binding site [chemical binding]; other site 398577000731 Q-loop/lid; other site 398577000732 ABC transporter signature motif; other site 398577000733 Walker B; other site 398577000734 D-loop; other site 398577000735 H-loop/switch region; other site 398577000736 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577000737 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577000738 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577000739 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 398577000740 Uncharacterized conserved protein [Function unknown]; Region: COG1656 398577000741 Protein of unknown function DUF82; Region: DUF82; pfam01927 398577000742 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398577000743 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398577000744 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577000745 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398577000746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577000747 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577000748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577000749 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 398577000750 dimerization interface [polypeptide binding]; other site 398577000751 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 398577000752 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 398577000753 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 398577000754 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 398577000755 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398577000756 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398577000757 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577000758 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398577000759 substrate binding site [chemical binding]; other site 398577000760 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398577000761 active site 398577000762 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 398577000763 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398577000764 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398577000765 putative NAD(P) binding site [chemical binding]; other site 398577000766 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 398577000767 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 398577000768 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 398577000769 dimer interface [polypeptide binding]; other site 398577000770 PYR/PP interface [polypeptide binding]; other site 398577000771 TPP binding site [chemical binding]; other site 398577000772 substrate binding site [chemical binding]; other site 398577000773 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 398577000774 TPP-binding site; other site 398577000775 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 398577000776 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 398577000777 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 398577000778 dimer interface [polypeptide binding]; other site 398577000779 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 398577000780 active site 398577000781 Fe binding site [ion binding]; other site 398577000782 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577000783 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 398577000784 putative DNA binding site [nucleotide binding]; other site 398577000785 putative Zn2+ binding site [ion binding]; other site 398577000786 AsnC family; Region: AsnC_trans_reg; pfam01037 398577000787 Protein of unknown function (DUF805); Region: DUF805; pfam05656 398577000788 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398577000789 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577000790 Coenzyme A binding pocket [chemical binding]; other site 398577000791 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577000792 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577000793 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 398577000794 Protein of unknown function; Region: DUF3658; pfam12395 398577000795 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 398577000796 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 398577000797 FAD binding pocket [chemical binding]; other site 398577000798 FAD binding motif [chemical binding]; other site 398577000799 phosphate binding motif [ion binding]; other site 398577000800 beta-alpha-beta structure motif; other site 398577000801 NAD(p) ribose binding residues [chemical binding]; other site 398577000802 NAD binding pocket [chemical binding]; other site 398577000803 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 398577000804 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 398577000805 catalytic loop [active] 398577000806 iron binding site [ion binding]; other site 398577000807 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 398577000808 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 398577000809 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 398577000810 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 398577000811 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 398577000812 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 398577000813 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 398577000814 active site 398577000815 catalytic triad [active] 398577000816 oxyanion hole [active] 398577000817 elongation factor Tu; Reviewed; Region: PRK00049 398577000818 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398577000819 G1 box; other site 398577000820 GEF interaction site [polypeptide binding]; other site 398577000821 GTP/Mg2+ binding site [chemical binding]; other site 398577000822 Switch I region; other site 398577000823 G2 box; other site 398577000824 G3 box; other site 398577000825 Switch II region; other site 398577000826 G4 box; other site 398577000827 G5 box; other site 398577000828 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 398577000829 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 398577000830 Antibiotic Binding Site [chemical binding]; other site 398577000831 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 398577000832 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 398577000833 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 398577000834 putative homodimer interface [polypeptide binding]; other site 398577000835 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 398577000836 heterodimer interface [polypeptide binding]; other site 398577000837 homodimer interface [polypeptide binding]; other site 398577000838 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 398577000839 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 398577000840 23S rRNA interface [nucleotide binding]; other site 398577000841 L7/L12 interface [polypeptide binding]; other site 398577000842 putative thiostrepton binding site; other site 398577000843 L25 interface [polypeptide binding]; other site 398577000844 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 398577000845 mRNA/rRNA interface [nucleotide binding]; other site 398577000846 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 398577000847 23S rRNA interface [nucleotide binding]; other site 398577000848 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 398577000849 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 398577000850 peripheral dimer interface [polypeptide binding]; other site 398577000851 core dimer interface [polypeptide binding]; other site 398577000852 L10 interface [polypeptide binding]; other site 398577000853 L11 interface [polypeptide binding]; other site 398577000854 putative EF-Tu interaction site [polypeptide binding]; other site 398577000855 putative EF-G interaction site [polypeptide binding]; other site 398577000856 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 398577000857 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 398577000858 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 398577000859 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 398577000860 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 398577000861 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 398577000862 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 398577000863 RPB3 interaction site [polypeptide binding]; other site 398577000864 RPB1 interaction site [polypeptide binding]; other site 398577000865 RPB11 interaction site [polypeptide binding]; other site 398577000866 RPB10 interaction site [polypeptide binding]; other site 398577000867 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 398577000868 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 398577000869 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 398577000870 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 398577000871 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 398577000872 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 398577000873 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 398577000874 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 398577000875 DNA binding site [nucleotide binding] 398577000876 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 398577000877 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 398577000878 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 398577000879 ATP binding site [chemical binding]; other site 398577000880 putative Mg++ binding site [ion binding]; other site 398577000881 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 398577000882 nucleotide binding region [chemical binding]; other site 398577000883 ATP-binding site [chemical binding]; other site 398577000884 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 398577000885 HRDC domain; Region: HRDC; pfam00570 398577000886 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 398577000887 S17 interaction site [polypeptide binding]; other site 398577000888 S8 interaction site; other site 398577000889 16S rRNA interaction site [nucleotide binding]; other site 398577000890 streptomycin interaction site [chemical binding]; other site 398577000891 23S rRNA interaction site [nucleotide binding]; other site 398577000892 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 398577000893 30S ribosomal protein S7; Validated; Region: PRK05302 398577000894 elongation factor G; Reviewed; Region: PRK00007 398577000895 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398577000896 G1 box; other site 398577000897 putative GEF interaction site [polypeptide binding]; other site 398577000898 GTP/Mg2+ binding site [chemical binding]; other site 398577000899 Switch I region; other site 398577000900 G2 box; other site 398577000901 G3 box; other site 398577000902 Switch II region; other site 398577000903 G4 box; other site 398577000904 G5 box; other site 398577000905 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 398577000906 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 398577000907 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 398577000908 elongation factor Tu; Reviewed; Region: PRK00049 398577000909 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 398577000910 G1 box; other site 398577000911 GEF interaction site [polypeptide binding]; other site 398577000912 GTP/Mg2+ binding site [chemical binding]; other site 398577000913 Switch I region; other site 398577000914 G2 box; other site 398577000915 G3 box; other site 398577000916 Switch II region; other site 398577000917 G4 box; other site 398577000918 G5 box; other site 398577000919 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 398577000920 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 398577000921 Antibiotic Binding Site [chemical binding]; other site 398577000922 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 398577000923 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 398577000924 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 398577000925 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 398577000926 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 398577000927 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 398577000928 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 398577000929 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 398577000930 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 398577000931 putative translocon binding site; other site 398577000932 protein-rRNA interface [nucleotide binding]; other site 398577000933 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 398577000934 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 398577000935 G-X-X-G motif; other site 398577000936 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 398577000937 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 398577000938 23S rRNA interface [nucleotide binding]; other site 398577000939 5S rRNA interface [nucleotide binding]; other site 398577000940 putative antibiotic binding site [chemical binding]; other site 398577000941 L25 interface [polypeptide binding]; other site 398577000942 L27 interface [polypeptide binding]; other site 398577000943 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 398577000944 23S rRNA interface [nucleotide binding]; other site 398577000945 putative translocon interaction site; other site 398577000946 signal recognition particle (SRP54) interaction site; other site 398577000947 L23 interface [polypeptide binding]; other site 398577000948 trigger factor interaction site; other site 398577000949 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 398577000950 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 398577000951 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 398577000952 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 398577000953 RNA binding site [nucleotide binding]; other site 398577000954 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 398577000955 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 398577000956 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 398577000957 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 398577000958 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 398577000959 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 398577000960 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398577000961 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 398577000962 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 398577000963 5S rRNA interface [nucleotide binding]; other site 398577000964 L27 interface [polypeptide binding]; other site 398577000965 23S rRNA interface [nucleotide binding]; other site 398577000966 L5 interface [polypeptide binding]; other site 398577000967 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 398577000968 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 398577000969 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 398577000970 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 398577000971 23S rRNA binding site [nucleotide binding]; other site 398577000972 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 398577000973 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 398577000974 SecY translocase; Region: SecY; pfam00344 398577000975 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 398577000976 rRNA binding site [nucleotide binding]; other site 398577000977 predicted 30S ribosome binding site; other site 398577000978 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 398577000979 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 398577000980 30S ribosomal protein S13; Region: bact_S13; TIGR03631 398577000981 30S ribosomal protein S11; Validated; Region: PRK05309 398577000982 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 398577000983 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 398577000984 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 398577000985 RNA binding surface [nucleotide binding]; other site 398577000986 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 398577000987 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 398577000988 alphaNTD homodimer interface [polypeptide binding]; other site 398577000989 alphaNTD - beta interaction site [polypeptide binding]; other site 398577000990 alphaNTD - beta' interaction site [polypeptide binding]; other site 398577000991 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 398577000992 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 398577000993 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 398577000994 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 398577000995 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 398577000996 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398577000997 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 398577000998 DsbD alpha interface [polypeptide binding]; other site 398577000999 catalytic residues [active] 398577001000 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 398577001001 dimer interface [polypeptide binding]; other site 398577001002 active site 398577001003 aspartate-rich active site metal binding site; other site 398577001004 allosteric magnesium binding site [ion binding]; other site 398577001005 Schiff base residues; other site 398577001006 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 398577001007 G1 box; other site 398577001008 GTP/Mg2+ binding site [chemical binding]; other site 398577001009 Switch I region; other site 398577001010 G2 box; other site 398577001011 G3 box; other site 398577001012 Switch II region; other site 398577001013 G4 box; other site 398577001014 G5 box; other site 398577001015 Cytochrome c553 [Energy production and conversion]; Region: COG2863 398577001016 Cytochrome c; Region: Cytochrom_C; cl11414 398577001017 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 398577001018 ResB-like family; Region: ResB; pfam05140 398577001019 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 398577001020 ResB-like family; Region: ResB; pfam05140 398577001021 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 398577001022 TMAO/DMSO reductase; Reviewed; Region: PRK05363 398577001023 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 398577001024 Moco binding site; other site 398577001025 metal coordination site [ion binding]; other site 398577001026 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 398577001027 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 398577001028 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 398577001029 putative iron binding site [ion binding]; other site 398577001030 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 398577001031 Transglycosylase; Region: Transgly; pfam00912 398577001032 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398577001033 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 398577001034 Secretin and TonB N terminus short domain; Region: STN; pfam07660 398577001035 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398577001036 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398577001037 shikimate kinase; Reviewed; Region: aroK; PRK00131 398577001038 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 398577001039 ADP binding site [chemical binding]; other site 398577001040 magnesium binding site [ion binding]; other site 398577001041 putative shikimate binding site; other site 398577001042 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 398577001043 active site 398577001044 dimer interface [polypeptide binding]; other site 398577001045 metal binding site [ion binding]; metal-binding site 398577001046 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 398577001047 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398577001048 Zn2+ binding site [ion binding]; other site 398577001049 Mg2+ binding site [ion binding]; other site 398577001050 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 398577001051 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398577001052 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 398577001053 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 398577001054 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 398577001055 dimer interface [polypeptide binding]; other site 398577001056 conserved gate region; other site 398577001057 putative PBP binding loops; other site 398577001058 ABC-ATPase subunit interface; other site 398577001059 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398577001060 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 398577001061 dimer interface [polypeptide binding]; other site 398577001062 conserved gate region; other site 398577001063 putative PBP binding loops; other site 398577001064 ABC-ATPase subunit interface; other site 398577001065 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398577001066 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 398577001067 Walker A/P-loop; other site 398577001068 ATP binding site [chemical binding]; other site 398577001069 Q-loop/lid; other site 398577001070 ABC transporter signature motif; other site 398577001071 Walker B; other site 398577001072 D-loop; other site 398577001073 H-loop/switch region; other site 398577001074 TOBE domain; Region: TOBE_2; pfam08402 398577001075 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 398577001076 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 398577001077 putative active site [active] 398577001078 catalytic site [active] 398577001079 putative metal binding site [ion binding]; other site 398577001080 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 398577001081 Transposase IS200 like; Region: Y1_Tnp; cl00848 398577001082 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 398577001083 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 398577001084 active site 398577001085 dimer interface [polypeptide binding]; other site 398577001086 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 398577001087 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 398577001088 active site 398577001089 FMN binding site [chemical binding]; other site 398577001090 substrate binding site [chemical binding]; other site 398577001091 3Fe-4S cluster binding site [ion binding]; other site 398577001092 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 398577001093 domain interface; other site 398577001094 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 398577001095 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577001096 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 398577001097 amino acid carrier protein; Region: agcS; TIGR00835 398577001098 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 398577001099 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 398577001100 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 398577001101 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 398577001102 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 398577001103 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 398577001104 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 398577001105 thiS-thiF/thiG interaction site; other site 398577001106 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 398577001107 ThiS interaction site; other site 398577001108 putative active site [active] 398577001109 tetramer interface [polypeptide binding]; other site 398577001110 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 398577001111 thiamine phosphate binding site [chemical binding]; other site 398577001112 active site 398577001113 pyrophosphate binding site [ion binding]; other site 398577001114 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 398577001115 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 398577001116 Walker A/P-loop; other site 398577001117 ATP binding site [chemical binding]; other site 398577001118 Q-loop/lid; other site 398577001119 ABC transporter signature motif; other site 398577001120 Walker B; other site 398577001121 D-loop; other site 398577001122 H-loop/switch region; other site 398577001123 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 398577001124 Permease; Region: Permease; pfam02405 398577001125 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 398577001126 mce related protein; Region: MCE; pfam02470 398577001127 VacJ like lipoprotein; Region: VacJ; cl01073 398577001128 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 398577001129 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 398577001130 anti sigma factor interaction site; other site 398577001131 regulatory phosphorylation site [posttranslational modification]; other site 398577001132 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398577001133 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398577001134 Walker A/P-loop; other site 398577001135 ATP binding site [chemical binding]; other site 398577001136 Q-loop/lid; other site 398577001137 ABC transporter signature motif; other site 398577001138 Walker B; other site 398577001139 D-loop; other site 398577001140 H-loop/switch region; other site 398577001141 ABC-2 type transporter; Region: ABC2_membrane; cl17235 398577001142 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398577001143 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 398577001144 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 398577001145 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 398577001146 hinge; other site 398577001147 active site 398577001148 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 398577001149 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 398577001150 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 398577001151 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 398577001152 NAD binding site [chemical binding]; other site 398577001153 dimerization interface [polypeptide binding]; other site 398577001154 product binding site; other site 398577001155 substrate binding site [chemical binding]; other site 398577001156 zinc binding site [ion binding]; other site 398577001157 catalytic residues [active] 398577001158 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 398577001159 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 398577001160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577001161 homodimer interface [polypeptide binding]; other site 398577001162 catalytic residue [active] 398577001163 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 398577001164 putative active site pocket [active] 398577001165 4-fold oligomerization interface [polypeptide binding]; other site 398577001166 metal binding residues [ion binding]; metal-binding site 398577001167 3-fold/trimer interface [polypeptide binding]; other site 398577001168 MarC family integral membrane protein; Region: MarC; cl00919 398577001169 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 398577001170 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 398577001171 putative active site [active] 398577001172 oxyanion strand; other site 398577001173 catalytic triad [active] 398577001174 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 398577001175 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398577001176 catalytic residues [active] 398577001177 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 398577001178 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 398577001179 substrate binding site [chemical binding]; other site 398577001180 glutamase interaction surface [polypeptide binding]; other site 398577001181 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 398577001182 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 398577001183 metal binding site [ion binding]; metal-binding site 398577001184 Predicted membrane protein [Function unknown]; Region: COG3671 398577001185 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 398577001186 nucleotide binding site/active site [active] 398577001187 HIT family signature motif; other site 398577001188 catalytic residue [active] 398577001189 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 398577001190 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 398577001191 sec-independent translocase; Provisional; Region: tatB; PRK01919 398577001192 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 398577001193 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 398577001194 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398577001195 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 398577001196 protein binding site [polypeptide binding]; other site 398577001197 Uncharacterized conserved protein [Function unknown]; Region: COG0327 398577001198 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 398577001199 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 398577001200 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 398577001201 [2Fe-2S] cluster binding site [ion binding]; other site 398577001202 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 398577001203 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 398577001204 Qi binding site; other site 398577001205 intrachain domain interface; other site 398577001206 interchain domain interface [polypeptide binding]; other site 398577001207 heme bH binding site [chemical binding]; other site 398577001208 heme bL binding site [chemical binding]; other site 398577001209 Qo binding site; other site 398577001210 interchain domain interface [polypeptide binding]; other site 398577001211 intrachain domain interface; other site 398577001212 Qi binding site; other site 398577001213 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 398577001214 Qo binding site; other site 398577001215 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 398577001216 stringent starvation protein A; Provisional; Region: sspA; PRK09481 398577001217 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 398577001218 C-terminal domain interface [polypeptide binding]; other site 398577001219 putative GSH binding site (G-site) [chemical binding]; other site 398577001220 dimer interface [polypeptide binding]; other site 398577001221 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 398577001222 dimer interface [polypeptide binding]; other site 398577001223 N-terminal domain interface [polypeptide binding]; other site 398577001224 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 398577001225 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 398577001226 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 398577001227 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 398577001228 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 398577001229 haemagglutination activity domain; Region: Haemagg_act; pfam05860 398577001230 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 398577001231 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 398577001232 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577001233 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 398577001234 substrate binding pocket [chemical binding]; other site 398577001235 membrane-bound complex binding site; other site 398577001236 hinge residues; other site 398577001237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577001238 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577001239 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577001240 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577001241 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577001242 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398577001243 RHS Repeat; Region: RHS_repeat; cl11982 398577001244 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 398577001245 RHS Repeat; Region: RHS_repeat; cl11982 398577001246 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398577001247 RHS Repeat; Region: RHS_repeat; pfam05593 398577001248 RHS Repeat; Region: RHS_repeat; pfam05593 398577001249 RHS Repeat; Region: RHS_repeat; pfam05593 398577001250 RHS Repeat; Region: RHS_repeat; cl11982 398577001251 RHS protein; Region: RHS; pfam03527 398577001252 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398577001253 MafB19-like deaminase; Region: MafB19-deam; pfam14437 398577001254 Immunity protein Imm1; Region: Imm1; pfam14430 398577001255 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 398577001256 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 398577001257 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 398577001258 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 398577001259 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 398577001260 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 398577001261 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 398577001262 TPR motif; other site 398577001263 binding surface 398577001264 Protein of unknown function (DUF770); Region: DUF770; pfam05591 398577001265 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 398577001266 Protein of unknown function (DUF877); Region: DUF877; pfam05943 398577001267 Protein of unknown function (DUF796); Region: DUF796; pfam05638 398577001268 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 398577001269 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398577001270 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 398577001271 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 398577001272 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 398577001273 Clp amino terminal domain; Region: Clp_N; pfam02861 398577001274 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 398577001275 Walker A motif; other site 398577001276 ATP binding site [chemical binding]; other site 398577001277 Walker B motif; other site 398577001278 arginine finger; other site 398577001279 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 398577001280 Walker A motif; other site 398577001281 ATP binding site [chemical binding]; other site 398577001282 Walker B motif; other site 398577001283 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 398577001284 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 398577001285 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 398577001286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577001287 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577001288 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577001289 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577001290 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577001291 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 398577001292 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398577001293 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 398577001294 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398577001295 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398577001296 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577001297 ligand binding site [chemical binding]; other site 398577001298 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 398577001299 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 398577001300 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 398577001301 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 398577001302 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 398577001303 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 398577001304 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 398577001305 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 398577001306 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 398577001307 Cl binding site [ion binding]; other site 398577001308 oligomer interface [polypeptide binding]; other site 398577001309 Peptidase family M1; Region: Peptidase_M1; pfam01433 398577001310 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398577001311 Zn binding site [ion binding]; other site 398577001312 Water Stress and Hypersensitive response; Region: WHy; smart00769 398577001313 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398577001314 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 398577001315 S-adenosylmethionine binding site [chemical binding]; other site 398577001316 Methyltransferase domain; Region: Methyltransf_32; pfam13679 398577001317 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 398577001318 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577001319 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577001320 putative substrate translocation pore; other site 398577001321 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577001322 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 398577001323 putative FMN binding site [chemical binding]; other site 398577001324 putative chaperone; Provisional; Region: PRK11678 398577001325 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 398577001326 nucleotide binding site [chemical binding]; other site 398577001327 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398577001328 SBD interface [polypeptide binding]; other site 398577001329 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 398577001330 DNA-binding site [nucleotide binding]; DNA binding site 398577001331 RNA-binding motif; other site 398577001332 amino acid transporter; Region: 2A0306; TIGR00909 398577001333 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 398577001334 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 398577001335 putative active site [active] 398577001336 metal binding site [ion binding]; metal-binding site 398577001337 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 398577001338 Flavoprotein; Region: Flavoprotein; pfam02441 398577001339 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 398577001340 putative GSH binding site [chemical binding]; other site 398577001341 catalytic residues [active] 398577001342 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 398577001343 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 398577001344 S-adenosylmethionine binding site [chemical binding]; other site 398577001345 peptide chain release factor 1; Validated; Region: prfA; PRK00591 398577001346 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398577001347 RF-1 domain; Region: RF-1; pfam00472 398577001348 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 398577001349 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 398577001350 tRNA; other site 398577001351 putative tRNA binding site [nucleotide binding]; other site 398577001352 putative NADP binding site [chemical binding]; other site 398577001353 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 398577001354 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577001355 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 398577001356 active site 398577001357 phosphorylation site [posttranslational modification] 398577001358 intermolecular recognition site; other site 398577001359 dimerization interface [polypeptide binding]; other site 398577001360 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 398577001361 DNA binding site [nucleotide binding] 398577001362 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398577001363 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398577001364 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398577001365 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 398577001366 active site 398577001367 Isochorismatase family; Region: Isochorismatase; pfam00857 398577001368 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 398577001369 catalytic triad [active] 398577001370 conserved cis-peptide bond; other site 398577001371 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 398577001372 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 398577001373 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 398577001374 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577001375 Walker A/P-loop; other site 398577001376 ATP binding site [chemical binding]; other site 398577001377 Q-loop/lid; other site 398577001378 ABC transporter signature motif; other site 398577001379 Walker B; other site 398577001380 D-loop; other site 398577001381 H-loop/switch region; other site 398577001382 ABC transporter; Region: ABC_tran_2; pfam12848 398577001383 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398577001384 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 398577001385 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577001386 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577001387 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 398577001388 dimerization interface [polypeptide binding]; other site 398577001389 substrate binding pocket [chemical binding]; other site 398577001390 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 398577001391 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577001392 Protein of unknown function (DUF419); Region: DUF419; cl15265 398577001393 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 398577001394 GTP-binding protein YchF; Reviewed; Region: PRK09601 398577001395 YchF GTPase; Region: YchF; cd01900 398577001396 G1 box; other site 398577001397 GTP/Mg2+ binding site [chemical binding]; other site 398577001398 Switch I region; other site 398577001399 G2 box; other site 398577001400 Switch II region; other site 398577001401 G3 box; other site 398577001402 G4 box; other site 398577001403 G5 box; other site 398577001404 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 398577001405 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 398577001406 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 398577001407 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 398577001408 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 398577001409 dimerization domain [polypeptide binding]; other site 398577001410 dimer interface [polypeptide binding]; other site 398577001411 catalytic residues [active] 398577001412 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 398577001413 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 398577001414 PDZ domain; Region: PDZ_2; pfam13180 398577001415 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398577001416 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577001417 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 398577001418 ligand binding site [chemical binding]; other site 398577001419 active site 398577001420 UGI interface [polypeptide binding]; other site 398577001421 catalytic site [active] 398577001422 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 398577001423 putative active site [active] 398577001424 putative metal binding residues [ion binding]; other site 398577001425 signature motif; other site 398577001426 putative triphosphate binding site [ion binding]; other site 398577001427 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 398577001428 active site 398577001429 ribulose/triose binding site [chemical binding]; other site 398577001430 phosphate binding site [ion binding]; other site 398577001431 substrate (anthranilate) binding pocket [chemical binding]; other site 398577001432 product (indole) binding pocket [chemical binding]; other site 398577001433 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 398577001434 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398577001435 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 398577001436 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 398577001437 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 398577001438 glutamine binding [chemical binding]; other site 398577001439 catalytic triad [active] 398577001440 anthranilate synthase component I; Provisional; Region: PRK13565 398577001441 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 398577001442 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 398577001443 phosphoglycolate phosphatase; Provisional; Region: PRK13222 398577001444 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 398577001445 motif II; other site 398577001446 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 398577001447 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 398577001448 substrate binding site [chemical binding]; other site 398577001449 hexamer interface [polypeptide binding]; other site 398577001450 metal binding site [ion binding]; metal-binding site 398577001451 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 398577001452 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 398577001453 MltA specific insert domain; Region: MltA; smart00925 398577001454 3D domain; Region: 3D; pfam06725 398577001455 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 398577001456 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 398577001457 active site 398577001458 AMP binding site [chemical binding]; other site 398577001459 homodimer interface [polypeptide binding]; other site 398577001460 acyl-activating enzyme (AAE) consensus motif; other site 398577001461 CoA binding site [chemical binding]; other site 398577001462 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 398577001463 CoenzymeA binding site [chemical binding]; other site 398577001464 subunit interaction site [polypeptide binding]; other site 398577001465 PHB binding site; other site 398577001466 enoyl-CoA hydratase; Provisional; Region: PRK08140 398577001467 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 398577001468 substrate binding site [chemical binding]; other site 398577001469 oxyanion hole (OAH) forming residues; other site 398577001470 trimer interface [polypeptide binding]; other site 398577001471 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 398577001472 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 398577001473 dimer interface [polypeptide binding]; other site 398577001474 active site 398577001475 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 398577001476 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398577001477 NAD(P) binding site [chemical binding]; other site 398577001478 catalytic residues [active] 398577001479 enoyl-CoA hydratase; Provisional; Region: PRK05862 398577001480 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 398577001481 substrate binding site [chemical binding]; other site 398577001482 oxyanion hole (OAH) forming residues; other site 398577001483 trimer interface [polypeptide binding]; other site 398577001484 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 398577001485 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 398577001486 putative molybdopterin cofactor binding site [chemical binding]; other site 398577001487 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 398577001488 putative molybdopterin cofactor binding site; other site 398577001489 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 398577001490 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398577001491 acyl-activating enzyme (AAE) consensus motif; other site 398577001492 putative AMP binding site [chemical binding]; other site 398577001493 putative active site [active] 398577001494 putative CoA binding site [chemical binding]; other site 398577001495 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577001496 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 398577001497 trimer interface [polypeptide binding]; other site 398577001498 eyelet of channel; other site 398577001499 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 398577001500 diiron binding motif [ion binding]; other site 398577001501 cell division protein MraZ; Reviewed; Region: PRK00326 398577001502 MraZ protein; Region: MraZ; pfam02381 398577001503 MraZ protein; Region: MraZ; pfam02381 398577001504 MraW methylase family; Region: Methyltransf_5; cl17771 398577001505 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 398577001506 Cell division protein FtsL; Region: FtsL; cl11433 398577001507 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 398577001508 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398577001509 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398577001510 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 398577001511 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398577001512 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398577001513 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 398577001514 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398577001515 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398577001516 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398577001517 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 398577001518 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 398577001519 Mg++ binding site [ion binding]; other site 398577001520 putative catalytic motif [active] 398577001521 putative substrate binding site [chemical binding]; other site 398577001522 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 398577001523 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398577001524 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398577001525 cell division protein FtsW; Region: ftsW; TIGR02614 398577001526 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 398577001527 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 398577001528 active site 398577001529 homodimer interface [polypeptide binding]; other site 398577001530 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 398577001531 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398577001532 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398577001533 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398577001534 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 398577001535 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 398577001536 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398577001537 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 398577001538 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 398577001539 Cell division protein FtsQ; Region: FtsQ; pfam03799 398577001540 cell division protein FtsA; Region: ftsA; TIGR01174 398577001541 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398577001542 nucleotide binding site [chemical binding]; other site 398577001543 Cell division protein FtsA; Region: FtsA; pfam14450 398577001544 cell division protein FtsZ; Validated; Region: PRK09330 398577001545 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 398577001546 nucleotide binding site [chemical binding]; other site 398577001547 SulA interaction site; other site 398577001548 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 398577001549 catalytic triad [active] 398577001550 dimer interface [polypeptide binding]; other site 398577001551 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 398577001552 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 398577001553 Protein of unknown function (DUF721); Region: DUF721; pfam05258 398577001554 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 398577001555 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 398577001556 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 398577001557 SEC-C motif; Region: SEC-C; pfam02810 398577001558 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 398577001559 heterotetramer interface [polypeptide binding]; other site 398577001560 active site pocket [active] 398577001561 cleavage site 398577001562 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 398577001563 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 398577001564 Walker A motif; other site 398577001565 ATP binding site [chemical binding]; other site 398577001566 Walker B motif; other site 398577001567 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 398577001568 active site 398577001569 8-oxo-dGMP binding site [chemical binding]; other site 398577001570 nudix motif; other site 398577001571 metal binding site [ion binding]; metal-binding site 398577001572 Domain of unknown function (DUF329); Region: DUF329; pfam03884 398577001573 hypothetical protein; Provisional; Region: PRK05287 398577001574 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 398577001575 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 398577001576 CoA-binding site [chemical binding]; other site 398577001577 ATP-binding [chemical binding]; other site 398577001578 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 398577001579 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 398577001580 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 398577001581 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 398577001582 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577001583 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577001584 Type II/IV secretion system protein; Region: T2SE; pfam00437 398577001585 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 398577001586 Walker A motif; other site 398577001587 ATP binding site [chemical binding]; other site 398577001588 Walker B motif; other site 398577001589 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 398577001590 Domain of unknown function DUF21; Region: DUF21; pfam01595 398577001591 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 398577001592 Transporter associated domain; Region: CorC_HlyC; smart01091 398577001593 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398577001594 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398577001595 substrate binding pocket [chemical binding]; other site 398577001596 chain length determination region; other site 398577001597 substrate-Mg2+ binding site; other site 398577001598 catalytic residues [active] 398577001599 aspartate-rich region 1; other site 398577001600 active site lid residues [active] 398577001601 aspartate-rich region 2; other site 398577001602 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 398577001603 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 398577001604 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 398577001605 GTPase CgtA; Reviewed; Region: obgE; PRK12299 398577001606 GTP1/OBG; Region: GTP1_OBG; pfam01018 398577001607 Obg GTPase; Region: Obg; cd01898 398577001608 G1 box; other site 398577001609 GTP/Mg2+ binding site [chemical binding]; other site 398577001610 Switch I region; other site 398577001611 G2 box; other site 398577001612 G3 box; other site 398577001613 Switch II region; other site 398577001614 G4 box; other site 398577001615 G5 box; other site 398577001616 gamma-glutamyl kinase; Provisional; Region: PRK05429 398577001617 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 398577001618 nucleotide binding site [chemical binding]; other site 398577001619 homotetrameric interface [polypeptide binding]; other site 398577001620 putative phosphate binding site [ion binding]; other site 398577001621 putative allosteric binding site; other site 398577001622 PUA domain; Region: PUA; pfam01472 398577001623 CNP1-like family; Region: CNP1; pfam08750 398577001624 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 398577001625 putative active site [active] 398577001626 Ap4A binding site [chemical binding]; other site 398577001627 nudix motif; other site 398577001628 putative metal binding site [ion binding]; other site 398577001629 prolyl-tRNA synthetase; Provisional; Region: PRK09194 398577001630 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 398577001631 dimer interface [polypeptide binding]; other site 398577001632 motif 1; other site 398577001633 active site 398577001634 motif 2; other site 398577001635 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 398577001636 putative deacylase active site [active] 398577001637 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 398577001638 active site 398577001639 motif 3; other site 398577001640 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 398577001641 anticodon binding site; other site 398577001642 MarC family integral membrane protein; Region: MarC; cl00919 398577001643 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398577001644 active site 398577001645 signal recognition particle protein; Provisional; Region: PRK10867 398577001646 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 398577001647 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 398577001648 P loop; other site 398577001649 GTP binding site [chemical binding]; other site 398577001650 Signal peptide binding domain; Region: SRP_SPB; pfam02978 398577001651 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 398577001652 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 398577001653 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 398577001654 amidase catalytic site [active] 398577001655 Zn binding residues [ion binding]; other site 398577001656 substrate binding site [chemical binding]; other site 398577001657 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 398577001658 ATP cone domain; Region: ATP-cone; pfam03477 398577001659 Class I ribonucleotide reductase; Region: RNR_I; cd01679 398577001660 active site 398577001661 dimer interface [polypeptide binding]; other site 398577001662 catalytic residues [active] 398577001663 effector binding site; other site 398577001664 R2 peptide binding site; other site 398577001665 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 398577001666 dimer interface [polypeptide binding]; other site 398577001667 putative radical transfer pathway; other site 398577001668 diiron center [ion binding]; other site 398577001669 tyrosyl radical; other site 398577001670 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 398577001671 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 398577001672 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577001673 substrate binding site [chemical binding]; other site 398577001674 ATP binding site [chemical binding]; other site 398577001675 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 398577001676 dimer interface [polypeptide binding]; other site 398577001677 catalytic triad [active] 398577001678 peroxidatic and resolving cysteines [active] 398577001679 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 398577001680 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 398577001681 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 398577001682 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398577001683 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 398577001684 S-adenosylmethionine binding site [chemical binding]; other site 398577001685 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 398577001686 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398577001687 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398577001688 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398577001689 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 398577001690 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 398577001691 carboxyltransferase (CT) interaction site; other site 398577001692 biotinylation site [posttranslational modification]; other site 398577001693 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 398577001694 Dehydroquinase class II; Region: DHquinase_II; pfam01220 398577001695 active site 398577001696 trimer interface [polypeptide binding]; other site 398577001697 dimer interface [polypeptide binding]; other site 398577001698 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 398577001699 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577001700 catalytic residues [active] 398577001701 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 398577001702 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 398577001703 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398577001704 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398577001705 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 398577001706 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 398577001707 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 398577001708 RNB domain; Region: RNB; pfam00773 398577001709 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 398577001710 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398577001711 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398577001712 shikimate binding site; other site 398577001713 NAD(P) binding site [chemical binding]; other site 398577001714 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 398577001715 Transglycosylase; Region: Transgly; cl17702 398577001716 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 398577001717 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 398577001718 EF-hand domain pair; Region: EF_hand_5; pfam13499 398577001719 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577001720 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577001721 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577001722 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 398577001723 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 398577001724 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 398577001725 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 398577001726 active site 398577001727 intersubunit interface [polypeptide binding]; other site 398577001728 catalytic residue [active] 398577001729 short chain dehydrogenase; Provisional; Region: PRK07063 398577001730 classical (c) SDRs; Region: SDR_c; cd05233 398577001731 NAD(P) binding site [chemical binding]; other site 398577001732 active site 398577001733 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398577001734 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 398577001735 ligand binding site [chemical binding]; other site 398577001736 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 398577001737 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577001738 Walker A/P-loop; other site 398577001739 ATP binding site [chemical binding]; other site 398577001740 Q-loop/lid; other site 398577001741 ABC transporter signature motif; other site 398577001742 Walker B; other site 398577001743 D-loop; other site 398577001744 H-loop/switch region; other site 398577001745 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577001746 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577001747 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 398577001748 TM-ABC transporter signature motif; other site 398577001749 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398577001750 classical (c) SDRs; Region: SDR_c; cd05233 398577001751 NAD(P) binding site [chemical binding]; other site 398577001752 active site 398577001753 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 398577001754 active site 398577001755 catalytic residues [active] 398577001756 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 398577001757 active site 398577001758 dimer interface [polypeptide binding]; other site 398577001759 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 398577001760 Competence-damaged protein; Region: CinA; pfam02464 398577001761 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 398577001762 tetramer interfaces [polypeptide binding]; other site 398577001763 binuclear metal-binding site [ion binding]; other site 398577001764 thiamine monophosphate kinase; Provisional; Region: PRK05731 398577001765 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 398577001766 ATP binding site [chemical binding]; other site 398577001767 dimerization interface [polypeptide binding]; other site 398577001768 malic enzyme; Reviewed; Region: PRK12862 398577001769 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398577001770 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398577001771 putative NAD(P) binding site [chemical binding]; other site 398577001772 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 398577001773 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 398577001774 active site 398577001775 barstar interaction site; other site 398577001776 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 398577001777 putative RNAase interaction site [polypeptide binding]; other site 398577001778 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 398577001779 RNA methyltransferase, RsmE family; Region: TIGR00046 398577001780 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 398577001781 putative dimer interface [polypeptide binding]; other site 398577001782 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577001783 spermidine synthase; Provisional; Region: PRK00811 398577001784 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 398577001785 transketolase; Reviewed; Region: PRK12753 398577001786 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 398577001787 TPP-binding site [chemical binding]; other site 398577001788 dimer interface [polypeptide binding]; other site 398577001789 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 398577001790 PYR/PP interface [polypeptide binding]; other site 398577001791 dimer interface [polypeptide binding]; other site 398577001792 TPP binding site [chemical binding]; other site 398577001793 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398577001794 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 398577001795 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 398577001796 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 398577001797 putative transposase OrfB; Reviewed; Region: PHA02517 398577001798 HTH-like domain; Region: HTH_21; pfam13276 398577001799 Integrase core domain; Region: rve; pfam00665 398577001800 Integrase core domain; Region: rve_2; pfam13333 398577001801 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 398577001802 Transposase; Region: HTH_Tnp_1; cl17663 398577001803 Helix-turn-helix domain; Region: HTH_28; pfam13518 398577001804 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398577001805 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577001806 DNA-binding site [nucleotide binding]; DNA binding site 398577001807 FCD domain; Region: FCD; pfam07729 398577001808 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 398577001809 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577001810 allantoicase; Provisional; Region: PRK13257 398577001811 Allantoicase repeat; Region: Allantoicase; pfam03561 398577001812 Allantoicase repeat; Region: Allantoicase; pfam03561 398577001813 ureidoglycolate hydrolase; Provisional; Region: PRK13395 398577001814 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 398577001815 ferric uptake regulator; Provisional; Region: fur; PRK09462 398577001816 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398577001817 metal binding site 2 [ion binding]; metal-binding site 398577001818 putative DNA binding helix; other site 398577001819 metal binding site 1 [ion binding]; metal-binding site 398577001820 dimer interface [polypeptide binding]; other site 398577001821 structural Zn2+ binding site [ion binding]; other site 398577001822 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 398577001823 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 398577001824 dihydrodipicolinate reductase; Provisional; Region: PRK00048 398577001825 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 398577001826 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 398577001827 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398577001828 TolR protein; Region: tolR; TIGR02801 398577001829 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398577001830 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 398577001831 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 398577001832 HIGH motif; other site 398577001833 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398577001834 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398577001835 active site 398577001836 KMSKS motif; other site 398577001837 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 398577001838 tRNA binding surface [nucleotide binding]; other site 398577001839 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 398577001840 Lipopolysaccharide-assembly; Region: LptE; cl01125 398577001841 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 398577001842 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 398577001843 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 398577001844 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 398577001845 putative catalytic cysteine [active] 398577001846 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 398577001847 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398577001848 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398577001849 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 398577001850 putative active site [active] 398577001851 phosphogluconate dehydratase; Validated; Region: PRK09054 398577001852 6-phosphogluconate dehydratase; Region: edd; TIGR01196 398577001853 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 398577001854 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 398577001855 active site 398577001856 intersubunit interface [polypeptide binding]; other site 398577001857 catalytic residue [active] 398577001858 GntP family permease; Region: GntP_permease; pfam02447 398577001859 fructuronate transporter; Provisional; Region: PRK10034; cl15264 398577001860 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 398577001861 ATP-binding site [chemical binding]; other site 398577001862 Gluconate-6-phosphate binding site [chemical binding]; other site 398577001863 Shikimate kinase; Region: SKI; pfam01202 398577001864 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 398577001865 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577001866 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577001867 adenylosuccinate lyase; Provisional; Region: PRK09285 398577001868 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 398577001869 tetramer interface [polypeptide binding]; other site 398577001870 active site 398577001871 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577001872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577001873 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 398577001874 dimerization interface [polypeptide binding]; other site 398577001875 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 398577001876 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 398577001877 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 398577001878 NAD(P) binding site [chemical binding]; other site 398577001879 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 398577001880 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 398577001881 substrate binding pocket [chemical binding]; other site 398577001882 membrane-bound complex binding site; other site 398577001883 hinge residues; other site 398577001884 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577001885 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 398577001886 dimer interface [polypeptide binding]; other site 398577001887 conserved gate region; other site 398577001888 putative PBP binding loops; other site 398577001889 ABC-ATPase subunit interface; other site 398577001890 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577001891 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 398577001892 dimer interface [polypeptide binding]; other site 398577001893 conserved gate region; other site 398577001894 putative PBP binding loops; other site 398577001895 ABC-ATPase subunit interface; other site 398577001896 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398577001897 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577001898 Walker A/P-loop; other site 398577001899 ATP binding site [chemical binding]; other site 398577001900 Q-loop/lid; other site 398577001901 ABC transporter signature motif; other site 398577001902 Walker B; other site 398577001903 D-loop; other site 398577001904 H-loop/switch region; other site 398577001905 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 398577001906 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 398577001907 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 398577001908 Autotransporter beta-domain; Region: Autotransporter; smart00869 398577001909 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 398577001910 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 398577001911 putative dimer interface [polypeptide binding]; other site 398577001912 putative active site [active] 398577001913 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 398577001914 active site 398577001915 substrate binding pocket [chemical binding]; other site 398577001916 dimer interface [polypeptide binding]; other site 398577001917 OsmC-like protein; Region: OsmC; cl00767 398577001918 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 398577001919 23S rRNA interface [nucleotide binding]; other site 398577001920 L3 interface [polypeptide binding]; other site 398577001921 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 398577001922 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 398577001923 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 398577001924 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 398577001925 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 398577001926 active site 398577001927 HIGH motif; other site 398577001928 dimer interface [polypeptide binding]; other site 398577001929 KMSKS motif; other site 398577001930 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 398577001931 RNA binding surface [nucleotide binding]; other site 398577001932 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 398577001933 putative active site [active] 398577001934 dimerization interface [polypeptide binding]; other site 398577001935 putative tRNAtyr binding site [nucleotide binding]; other site 398577001936 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 398577001937 catalytic core [active] 398577001938 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 398577001939 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 398577001940 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 398577001941 Walker A motif; other site 398577001942 ATP binding site [chemical binding]; other site 398577001943 Walker B motif; other site 398577001944 arginine finger; other site 398577001945 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 398577001946 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 398577001947 RuvA N terminal domain; Region: RuvA_N; pfam01330 398577001948 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 398577001949 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 398577001950 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 398577001951 active site 398577001952 putative DNA-binding cleft [nucleotide binding]; other site 398577001953 dimer interface [polypeptide binding]; other site 398577001954 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 398577001955 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 398577001956 purine monophosphate binding site [chemical binding]; other site 398577001957 dimer interface [polypeptide binding]; other site 398577001958 putative catalytic residues [active] 398577001959 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 398577001960 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 398577001961 DNA-binding protein Fis; Provisional; Region: PRK01905 398577001962 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 398577001963 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 398577001964 FMN binding site [chemical binding]; other site 398577001965 active site 398577001966 catalytic residues [active] 398577001967 substrate binding site [chemical binding]; other site 398577001968 hypothetical protein; Provisional; Region: PRK06996 398577001969 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577001970 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 398577001971 proline aminopeptidase P II; Provisional; Region: PRK10879 398577001972 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 398577001973 active site 398577001974 putative glutathione S-transferase; Provisional; Region: PRK10357 398577001975 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 398577001976 putative C-terminal domain interface [polypeptide binding]; other site 398577001977 putative GSH binding site (G-site) [chemical binding]; other site 398577001978 putative dimer interface [polypeptide binding]; other site 398577001979 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 398577001980 dimer interface [polypeptide binding]; other site 398577001981 N-terminal domain interface [polypeptide binding]; other site 398577001982 putative substrate binding pocket (H-site) [chemical binding]; other site 398577001983 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 398577001984 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 398577001985 active site 398577001986 FMN binding site [chemical binding]; other site 398577001987 substrate binding site [chemical binding]; other site 398577001988 3Fe-4S cluster binding site [ion binding]; other site 398577001989 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 398577001990 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 398577001991 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 398577001992 nudix motif; other site 398577001993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577001994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577001995 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_2; cd08464 398577001996 putative substrate binding pocket [chemical binding]; other site 398577001997 putative dimerization interface [polypeptide binding]; other site 398577001998 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 398577001999 Predicted amidohydrolase [General function prediction only]; Region: COG0388 398577002000 putative active site [active] 398577002001 catalytic triad [active] 398577002002 putative dimer interface [polypeptide binding]; other site 398577002003 Predicted transcriptional regulator [Transcription]; Region: COG2378 398577002004 HTH domain; Region: HTH_11; pfam08279 398577002005 WYL domain; Region: WYL; pfam13280 398577002006 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 398577002007 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577002008 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 398577002009 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 398577002010 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 398577002011 Site-specific recombinase; Region: SpecificRecomb; pfam10136 398577002012 Protein of unknown function (DUF330); Region: DUF330; pfam03886 398577002013 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 398577002014 mce related protein; Region: MCE; pfam02470 398577002015 mce related protein; Region: MCE; pfam02470 398577002016 Paraquat-inducible protein A; Region: PqiA; pfam04403 398577002017 Paraquat-inducible protein A; Region: PqiA; pfam04403 398577002018 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 398577002019 YceI-like domain; Region: YceI; smart00867 398577002020 Uncharacterized conserved protein [Function unknown]; Region: COG2353 398577002021 citrate-proton symporter; Provisional; Region: PRK15075 398577002022 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577002023 putative substrate translocation pore; other site 398577002024 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577002025 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 398577002026 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398577002027 Protein export membrane protein; Region: SecD_SecF; cl14618 398577002028 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 398577002029 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 398577002030 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 398577002031 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 398577002032 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 398577002033 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 398577002034 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 398577002035 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 398577002036 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 398577002037 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 398577002038 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 398577002039 ssDNA binding site; other site 398577002040 generic binding surface II; other site 398577002041 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 398577002042 ATP binding site [chemical binding]; other site 398577002043 putative Mg++ binding site [ion binding]; other site 398577002044 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 398577002045 nucleotide binding region [chemical binding]; other site 398577002046 ATP-binding site [chemical binding]; other site 398577002047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577002048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577002049 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 398577002050 dimerization interface [polypeptide binding]; other site 398577002051 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 398577002052 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 398577002053 dimer interface [polypeptide binding]; other site 398577002054 active site 398577002055 heme binding site [chemical binding]; other site 398577002056 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 398577002057 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 398577002058 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 398577002059 dimerization interface [polypeptide binding]; other site 398577002060 DPS ferroxidase diiron center [ion binding]; other site 398577002061 ion pore; other site 398577002062 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 398577002063 UbiA prenyltransferase family; Region: UbiA; pfam01040 398577002064 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 398577002065 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 398577002066 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 398577002067 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398577002068 catalytic residue [active] 398577002069 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 398577002070 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 398577002071 Cysteine-rich domain; Region: CCG; pfam02754 398577002072 Cysteine-rich domain; Region: CCG; pfam02754 398577002073 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 398577002074 FAD binding domain; Region: FAD_binding_4; pfam01565 398577002075 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 398577002076 FAD binding domain; Region: FAD_binding_4; pfam01565 398577002077 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398577002078 FAD binding domain; Region: FAD_binding_4; pfam01565 398577002079 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 398577002080 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 398577002081 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 398577002082 heme-binding site [chemical binding]; other site 398577002083 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 398577002084 FAD binding pocket [chemical binding]; other site 398577002085 FAD binding motif [chemical binding]; other site 398577002086 phosphate binding motif [ion binding]; other site 398577002087 beta-alpha-beta structure motif; other site 398577002088 NAD binding pocket [chemical binding]; other site 398577002089 Heme binding pocket [chemical binding]; other site 398577002090 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 398577002091 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 398577002092 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398577002093 protease TldD; Provisional; Region: tldD; PRK10735 398577002094 nitrilase; Region: PLN02798 398577002095 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 398577002096 putative active site [active] 398577002097 catalytic triad [active] 398577002098 dimer interface [polypeptide binding]; other site 398577002099 TIGR02099 family protein; Region: TIGR02099 398577002100 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 398577002101 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 398577002102 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398577002103 metal binding triad; other site 398577002104 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398577002105 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398577002106 metal binding triad; other site 398577002107 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398577002108 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 398577002109 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398577002110 Walker A/P-loop; other site 398577002111 ATP binding site [chemical binding]; other site 398577002112 Q-loop/lid; other site 398577002113 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 398577002114 ABC transporter signature motif; other site 398577002115 Walker B; other site 398577002116 D-loop; other site 398577002117 H-loop/switch region; other site 398577002118 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 398577002119 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 398577002120 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 398577002121 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 398577002122 ferrochelatase; Reviewed; Region: hemH; PRK00035 398577002123 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 398577002124 C-terminal domain interface [polypeptide binding]; other site 398577002125 active site 398577002126 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 398577002127 active site 398577002128 N-terminal domain interface [polypeptide binding]; other site 398577002129 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 398577002130 RNA binding surface [nucleotide binding]; other site 398577002131 GrpE; Region: GrpE; pfam01025 398577002132 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 398577002133 dimer interface [polypeptide binding]; other site 398577002134 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 398577002135 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 398577002136 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 398577002137 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398577002138 nucleotide binding site [chemical binding]; other site 398577002139 chaperone protein DnaJ; Provisional; Region: PRK10767 398577002140 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 398577002141 HSP70 interaction site [polypeptide binding]; other site 398577002142 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 398577002143 Zn binding sites [ion binding]; other site 398577002144 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 398577002145 dimer interface [polypeptide binding]; other site 398577002146 chorismate binding enzyme; Region: Chorismate_bind; cl10555 398577002147 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 398577002148 hypothetical protein; Provisional; Region: PRK07546 398577002149 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398577002150 homodimer interface [polypeptide binding]; other site 398577002151 substrate-cofactor binding pocket; other site 398577002152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577002153 catalytic residue [active] 398577002154 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 398577002155 oligomerization interface [polypeptide binding]; other site 398577002156 active site 398577002157 metal binding site [ion binding]; metal-binding site 398577002158 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 398577002159 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 398577002160 Substrate-binding site [chemical binding]; other site 398577002161 Substrate specificity [chemical binding]; other site 398577002162 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 398577002163 catalytic center binding site [active] 398577002164 ATP binding site [chemical binding]; other site 398577002165 poly(A) polymerase; Region: pcnB; TIGR01942 398577002166 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398577002167 active site 398577002168 NTP binding site [chemical binding]; other site 398577002169 metal binding triad [ion binding]; metal-binding site 398577002170 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398577002171 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 398577002172 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 398577002173 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398577002174 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 398577002175 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 398577002176 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 398577002177 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 398577002178 dimerization interface [polypeptide binding]; other site 398577002179 putative ATP binding site [chemical binding]; other site 398577002180 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 398577002181 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577002182 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577002183 putative substrate translocation pore; other site 398577002184 tetracycline repressor protein TetR; Provisional; Region: PRK13756 398577002185 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577002186 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 398577002187 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 398577002188 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 398577002189 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 398577002190 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 398577002191 ATP binding site [chemical binding]; other site 398577002192 Mg2+ binding site [ion binding]; other site 398577002193 G-X-G motif; other site 398577002194 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 398577002195 ATP binding site [chemical binding]; other site 398577002196 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 398577002197 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 398577002198 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398577002199 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398577002200 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398577002201 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 398577002202 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 398577002203 putative active site [active] 398577002204 putative dimer interface [polypeptide binding]; other site 398577002205 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398577002206 Cupin; Region: Cupin_6; pfam12852 398577002207 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577002208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577002209 Predicted membrane protein [Function unknown]; Region: COG4682 398577002210 yiaA/B two helix domain; Region: YiaAB; pfam05360 398577002211 yiaA/B two helix domain; Region: YiaAB; pfam05360 398577002212 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 398577002213 Tetratricopeptide repeat; Region: TPR_6; pfam13174 398577002214 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398577002215 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577002216 ligand binding site [chemical binding]; other site 398577002217 translocation protein TolB; Provisional; Region: tolB; PRK02889 398577002218 TolB amino-terminal domain; Region: TolB_N; pfam04052 398577002219 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398577002220 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 398577002221 TolA protein; Region: tolA_full; TIGR02794 398577002222 TonB C terminal; Region: TonB_2; pfam13103 398577002223 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398577002224 TolR protein; Region: tolR; TIGR02801 398577002225 TolQ protein; Region: tolQ; TIGR02796 398577002226 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 398577002227 active site 398577002228 malonic semialdehyde reductase; Provisional; Region: PRK10538 398577002229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577002230 NAD(P) binding site [chemical binding]; other site 398577002231 active site 398577002232 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 398577002233 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 398577002234 dimer interface [polypeptide binding]; other site 398577002235 active site 398577002236 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398577002237 folate binding site [chemical binding]; other site 398577002238 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 398577002239 ATP cone domain; Region: ATP-cone; pfam03477 398577002240 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 398577002241 Type II transport protein GspH; Region: GspH; pfam12019 398577002242 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 398577002243 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 398577002244 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 398577002245 Predicted membrane protein [Function unknown]; Region: COG5393 398577002246 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 398577002247 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398577002248 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 398577002249 dimer interface [polypeptide binding]; other site 398577002250 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398577002251 catalytic triad [active] 398577002252 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 398577002253 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577002254 FAD binding site [chemical binding]; other site 398577002255 substrate binding pocket [chemical binding]; other site 398577002256 catalytic base [active] 398577002257 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577002258 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577002259 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577002260 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 398577002261 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 398577002262 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577002263 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577002264 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 398577002265 benzoate transport; Region: 2A0115; TIGR00895 398577002266 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577002267 putative substrate translocation pore; other site 398577002268 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577002269 putative substrate translocation pore; other site 398577002270 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 398577002271 fumarylacetoacetase; Region: PLN02856 398577002272 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 398577002273 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577002274 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577002275 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 398577002276 putative FMN binding site [chemical binding]; other site 398577002277 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398577002278 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 398577002279 putative ligand binding site [chemical binding]; other site 398577002280 putative NAD binding site [chemical binding]; other site 398577002281 catalytic site [active] 398577002282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577002283 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577002284 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 398577002285 putative effector binding pocket; other site 398577002286 dimerization interface [polypeptide binding]; other site 398577002287 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 398577002288 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577002289 catalytic residue [active] 398577002290 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577002291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577002292 EamA-like transporter family; Region: EamA; pfam00892 398577002293 EamA-like transporter family; Region: EamA; pfam00892 398577002294 major facilitator superfamily transporter; Provisional; Region: PRK05122 398577002295 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 398577002296 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 398577002297 catalytic loop [active] 398577002298 iron binding site [ion binding]; other site 398577002299 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577002300 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 398577002301 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 398577002302 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398577002303 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577002304 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 398577002305 XdhC Rossmann domain; Region: XdhC_C; pfam13478 398577002306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 398577002307 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577002308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577002309 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 398577002310 dimerization interface [polypeptide binding]; other site 398577002311 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 398577002312 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398577002313 putative catalytic residue [active] 398577002314 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 398577002315 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 398577002316 BON domain; Region: BON; pfam04972 398577002317 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 398577002318 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398577002319 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 398577002320 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 398577002321 catalytic residues [active] 398577002322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 398577002323 YheO-like PAS domain; Region: PAS_6; pfam08348 398577002324 HTH domain; Region: HTH_22; pfam13309 398577002325 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 398577002326 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398577002327 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 398577002328 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577002329 substrate binding pocket [chemical binding]; other site 398577002330 membrane-bound complex binding site; other site 398577002331 hinge residues; other site 398577002332 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577002333 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577002334 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398577002335 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398577002336 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398577002337 RNA polymerase sigma factor; Provisional; Region: PRK12511 398577002338 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577002339 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 398577002340 DNA binding residues [nucleotide binding] 398577002341 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 398577002342 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 398577002343 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 398577002344 putative hydrophobic ligand binding site [chemical binding]; other site 398577002345 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 398577002346 oligomerisation interface [polypeptide binding]; other site 398577002347 mobile loop; other site 398577002348 roof hairpin; other site 398577002349 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 398577002350 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 398577002351 ring oligomerisation interface [polypeptide binding]; other site 398577002352 ATP/Mg binding site [chemical binding]; other site 398577002353 stacking interactions; other site 398577002354 hinge regions; other site 398577002355 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 398577002356 dimer interface [polypeptide binding]; other site 398577002357 substrate binding site [chemical binding]; other site 398577002358 ATP binding site [chemical binding]; other site 398577002359 Rubredoxin [Energy production and conversion]; Region: COG1773 398577002360 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 398577002361 iron binding site [ion binding]; other site 398577002362 hypothetical protein; Validated; Region: PRK00228 398577002363 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 398577002364 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398577002365 active site 398577002366 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 398577002367 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398577002368 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398577002369 dihydroorotase; Provisional; Region: PRK07627 398577002370 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 398577002371 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 398577002372 active site 398577002373 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398577002374 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398577002375 putative acyl-acceptor binding pocket; other site 398577002376 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 398577002377 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 398577002378 active site 398577002379 metal binding site [ion binding]; metal-binding site 398577002380 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 398577002381 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 398577002382 NAD binding site [chemical binding]; other site 398577002383 substrate binding site [chemical binding]; other site 398577002384 homodimer interface [polypeptide binding]; other site 398577002385 active site 398577002386 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 398577002387 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 398577002388 substrate binding site; other site 398577002389 tetramer interface; other site 398577002390 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 398577002391 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 398577002392 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 398577002393 NADP binding site [chemical binding]; other site 398577002394 active site 398577002395 putative substrate binding site [chemical binding]; other site 398577002396 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 398577002397 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 398577002398 Substrate binding site; other site 398577002399 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 398577002400 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 398577002401 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398577002402 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 398577002403 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 398577002404 Walker A/P-loop; other site 398577002405 ATP binding site [chemical binding]; other site 398577002406 Q-loop/lid; other site 398577002407 ABC transporter signature motif; other site 398577002408 Walker B; other site 398577002409 D-loop; other site 398577002410 H-loop/switch region; other site 398577002411 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 398577002412 putative carbohydrate binding site [chemical binding]; other site 398577002413 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398577002414 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 398577002415 S-adenosylmethionine binding site [chemical binding]; other site 398577002416 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 398577002417 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577002418 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577002419 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 398577002420 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 398577002421 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577002422 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 398577002423 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 398577002424 NADP-binding site; other site 398577002425 homotetramer interface [polypeptide binding]; other site 398577002426 substrate binding site [chemical binding]; other site 398577002427 homodimer interface [polypeptide binding]; other site 398577002428 active site 398577002429 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 398577002430 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 398577002431 NADP-binding site; other site 398577002432 homotetramer interface [polypeptide binding]; other site 398577002433 substrate binding site [chemical binding]; other site 398577002434 homodimer interface [polypeptide binding]; other site 398577002435 active site 398577002436 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 398577002437 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577002438 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 398577002439 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 398577002440 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577002441 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 398577002442 putative NAD(P) binding site [chemical binding]; other site 398577002443 active site 398577002444 putative substrate binding site [chemical binding]; other site 398577002445 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 398577002446 Mg++ binding site [ion binding]; other site 398577002447 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 398577002448 putative catalytic motif [active] 398577002449 putative substrate binding site [chemical binding]; other site 398577002450 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 398577002451 CoA binding domain; Region: CoA_binding; cl17356 398577002452 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 398577002453 NAD(P) binding site [chemical binding]; other site 398577002454 homodimer interface [polypeptide binding]; other site 398577002455 substrate binding site [chemical binding]; other site 398577002456 active site 398577002457 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 398577002458 peptidase domain interface [polypeptide binding]; other site 398577002459 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 398577002460 active site 398577002461 catalytic triad [active] 398577002462 calcium binding site [ion binding]; other site 398577002463 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 398577002464 dimerization interface [polypeptide binding]; other site 398577002465 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 398577002466 mannose binding site [chemical binding]; other site 398577002467 Bulb-type mannose-specific lectin; Region: B_lectin; smart00108 398577002468 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 398577002469 dimerization interface [polypeptide binding]; other site 398577002470 mannose binding site [chemical binding]; other site 398577002471 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 398577002472 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 398577002473 Mg++ binding site [ion binding]; other site 398577002474 putative catalytic motif [active] 398577002475 UDP-glucose 4-epimerase; Region: PLN02240 398577002476 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 398577002477 NAD binding site [chemical binding]; other site 398577002478 homodimer interface [polypeptide binding]; other site 398577002479 active site 398577002480 substrate binding site [chemical binding]; other site 398577002481 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 398577002482 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577002483 putative ADP-binding pocket [chemical binding]; other site 398577002484 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398577002485 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 398577002486 active site 398577002487 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 398577002488 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 398577002489 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 398577002490 active site 398577002491 substrate binding site [chemical binding]; other site 398577002492 metal binding site [ion binding]; metal-binding site 398577002493 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398577002494 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 398577002495 putative active site [active] 398577002496 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 398577002497 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 398577002498 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 398577002499 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 398577002500 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 398577002501 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 398577002502 UreF; Region: UreF; pfam01730 398577002503 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 398577002504 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 398577002505 dimer interface [polypeptide binding]; other site 398577002506 catalytic residues [active] 398577002507 urease subunit alpha; Reviewed; Region: ureC; PRK13207 398577002508 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 398577002509 subunit interactions [polypeptide binding]; other site 398577002510 active site 398577002511 flap region; other site 398577002512 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 398577002513 gamma-beta subunit interface [polypeptide binding]; other site 398577002514 alpha-beta subunit interface [polypeptide binding]; other site 398577002515 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 398577002516 alpha-gamma subunit interface [polypeptide binding]; other site 398577002517 beta-gamma subunit interface [polypeptide binding]; other site 398577002518 UreD urease accessory protein; Region: UreD; cl00530 398577002519 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 398577002520 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398577002521 Walker A/P-loop; other site 398577002522 ATP binding site [chemical binding]; other site 398577002523 Q-loop/lid; other site 398577002524 ABC transporter signature motif; other site 398577002525 Walker B; other site 398577002526 D-loop; other site 398577002527 H-loop/switch region; other site 398577002528 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 398577002529 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398577002530 Walker A/P-loop; other site 398577002531 ATP binding site [chemical binding]; other site 398577002532 Q-loop/lid; other site 398577002533 ABC transporter signature motif; other site 398577002534 Walker B; other site 398577002535 D-loop; other site 398577002536 H-loop/switch region; other site 398577002537 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398577002538 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 398577002539 TM-ABC transporter signature motif; other site 398577002540 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 398577002541 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577002542 TM-ABC transporter signature motif; other site 398577002543 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398577002544 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 398577002545 putative ligand binding site [chemical binding]; other site 398577002546 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 398577002547 active site residue [active] 398577002548 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 398577002549 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 398577002550 S-adenosylmethionine binding site [chemical binding]; other site 398577002551 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 398577002552 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 398577002553 FeS/SAM binding site; other site 398577002554 HemN C-terminal domain; Region: HemN_C; pfam06969 398577002555 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 398577002556 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 398577002557 S-adenosylmethionine binding site [chemical binding]; other site 398577002558 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 398577002559 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398577002560 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 398577002561 metal binding site [ion binding]; metal-binding site 398577002562 substrate binding pocket [chemical binding]; other site 398577002563 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 398577002564 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 398577002565 active site 398577002566 catalytic triad [active] 398577002567 calcium binding site [ion binding]; other site 398577002568 chromosome condensation membrane protein; Provisional; Region: PRK14196 398577002569 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 398577002570 YGGT family; Region: YGGT; pfam02325 398577002571 YGGT family; Region: YGGT; pfam02325 398577002572 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 398577002573 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 398577002574 LysE type translocator; Region: LysE; cl00565 398577002575 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 398577002576 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398577002577 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 398577002578 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577002579 catalytic residue [active] 398577002580 aminotransferase; Validated; Region: PRK07337 398577002581 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 398577002582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577002583 homodimer interface [polypeptide binding]; other site 398577002584 catalytic residue [active] 398577002585 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 398577002586 putative RNA binding site [nucleotide binding]; other site 398577002587 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 398577002588 homopentamer interface [polypeptide binding]; other site 398577002589 active site 398577002590 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 398577002591 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 398577002592 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 398577002593 dimerization interface [polypeptide binding]; other site 398577002594 active site 398577002595 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 398577002596 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 398577002597 Lumazine binding domain; Region: Lum_binding; pfam00677 398577002598 Lumazine binding domain; Region: Lum_binding; pfam00677 398577002599 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 398577002600 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 398577002601 catalytic motif [active] 398577002602 Zn binding site [ion binding]; other site 398577002603 RibD C-terminal domain; Region: RibD_C; cl17279 398577002604 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 398577002605 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 398577002606 inhibitor-cofactor binding pocket; inhibition site 398577002607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577002608 catalytic residue [active] 398577002609 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 398577002610 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577002611 putative substrate translocation pore; other site 398577002612 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 398577002613 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 398577002614 glucokinase; Provisional; Region: glk; PRK00292 398577002615 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398577002616 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 398577002617 putative active site [active] 398577002618 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 398577002619 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 398577002620 putative active site [active] 398577002621 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 398577002622 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 398577002623 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 398577002624 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398577002625 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 398577002626 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 398577002627 dimer interface [polypeptide binding]; other site 398577002628 conserved gate region; other site 398577002629 putative PBP binding loops; other site 398577002630 ABC-ATPase subunit interface; other site 398577002631 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398577002632 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 398577002633 dimer interface [polypeptide binding]; other site 398577002634 conserved gate region; other site 398577002635 putative PBP binding loops; other site 398577002636 ABC-ATPase subunit interface; other site 398577002637 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398577002638 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 398577002639 Walker A/P-loop; other site 398577002640 ATP binding site [chemical binding]; other site 398577002641 Q-loop/lid; other site 398577002642 ABC transporter signature motif; other site 398577002643 Walker B; other site 398577002644 D-loop; other site 398577002645 H-loop/switch region; other site 398577002646 TOBE domain; Region: TOBE_2; pfam08402 398577002647 Predicted membrane protein [Function unknown]; Region: COG2860 398577002648 UPF0126 domain; Region: UPF0126; pfam03458 398577002649 UPF0126 domain; Region: UPF0126; pfam03458 398577002650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 398577002651 Smr domain; Region: Smr; pfam01713 398577002652 thioredoxin reductase; Provisional; Region: PRK10262 398577002653 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577002654 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577002655 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 398577002656 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398577002657 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 398577002658 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 398577002659 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 398577002660 recombination factor protein RarA; Reviewed; Region: PRK13342 398577002661 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 398577002662 Walker A motif; other site 398577002663 ATP binding site [chemical binding]; other site 398577002664 Walker B motif; other site 398577002665 arginine finger; other site 398577002666 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 398577002667 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 398577002668 seryl-tRNA synthetase; Provisional; Region: PRK05431 398577002669 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 398577002670 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 398577002671 dimer interface [polypeptide binding]; other site 398577002672 active site 398577002673 motif 1; other site 398577002674 motif 2; other site 398577002675 motif 3; other site 398577002676 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 398577002677 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398577002678 Di-iron ligands [ion binding]; other site 398577002679 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398577002680 septum formation inhibitor; Reviewed; Region: PRK01973 398577002681 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 398577002682 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 398577002683 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 398577002684 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 398577002685 Switch I; other site 398577002686 Switch II; other site 398577002687 cell division topological specificity factor MinE; Provisional; Region: PRK13989 398577002688 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 398577002689 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 398577002690 putative ion selectivity filter; other site 398577002691 putative pore gating glutamate residue; other site 398577002692 putative H+/Cl- coupling transport residue; other site 398577002693 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398577002694 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 398577002695 putative active site [active] 398577002696 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577002697 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577002698 putative substrate translocation pore; other site 398577002699 Gram-negative bacterial tonB protein; Region: TonB; cl10048 398577002700 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 398577002701 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 398577002702 FeS/SAM binding site; other site 398577002703 HemN C-terminal domain; Region: HemN_C; pfam06969 398577002704 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 398577002705 active site 398577002706 dimerization interface [polypeptide binding]; other site 398577002707 ribonuclease PH; Reviewed; Region: rph; PRK00173 398577002708 Ribonuclease PH; Region: RNase_PH_bact; cd11362 398577002709 hexamer interface [polypeptide binding]; other site 398577002710 active site 398577002711 hypothetical protein; Provisional; Region: PRK11820 398577002712 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 398577002713 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 398577002714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577002715 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 398577002716 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 398577002717 catalytic site [active] 398577002718 Walker A/P-loop; other site 398577002719 G-X2-G-X-G-K; other site 398577002720 ATP binding site [chemical binding]; other site 398577002721 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 398577002722 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398577002723 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398577002724 Zn2+ binding site [ion binding]; other site 398577002725 Mg2+ binding site [ion binding]; other site 398577002726 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398577002727 synthetase active site [active] 398577002728 NTP binding site [chemical binding]; other site 398577002729 metal binding site [ion binding]; metal-binding site 398577002730 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 398577002731 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 398577002732 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 398577002733 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398577002734 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398577002735 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577002736 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 398577002737 eyelet of channel; other site 398577002738 trimer interface [polypeptide binding]; other site 398577002739 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 398577002740 DNA-binding site [nucleotide binding]; DNA binding site 398577002741 RNA-binding motif; other site 398577002742 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398577002743 active site 398577002744 catalytic site [active] 398577002745 substrate binding site [chemical binding]; other site 398577002746 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 398577002747 GIY-YIG motif/motif A; other site 398577002748 active site 398577002749 catalytic site [active] 398577002750 putative DNA binding site [nucleotide binding]; other site 398577002751 metal binding site [ion binding]; metal-binding site 398577002752 chorismate mutase; Provisional; Region: PRK09269 398577002753 Chorismate mutase type II; Region: CM_2; cl00693 398577002754 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 398577002755 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 398577002756 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 398577002757 N-terminal plug; other site 398577002758 ligand-binding site [chemical binding]; other site 398577002759 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577002760 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398577002761 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 398577002762 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 398577002763 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 398577002764 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577002765 DNA binding residues [nucleotide binding] 398577002766 dimerization interface [polypeptide binding]; other site 398577002767 fructose-1,6-bisphosphatase family protein; Region: PLN02628 398577002768 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 398577002769 AMP binding site [chemical binding]; other site 398577002770 metal binding site [ion binding]; metal-binding site 398577002771 active site 398577002772 aminopeptidase N; Provisional; Region: pepN; PRK14015 398577002773 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 398577002774 active site 398577002775 Zn binding site [ion binding]; other site 398577002776 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 398577002777 Predicted membrane protein [Function unknown]; Region: COG2119 398577002778 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398577002779 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 398577002780 guanine deaminase; Provisional; Region: PRK09228 398577002781 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 398577002782 active site 398577002783 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 398577002784 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 398577002785 active site 398577002786 purine riboside binding site [chemical binding]; other site 398577002787 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 398577002788 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 398577002789 XdhC Rossmann domain; Region: XdhC_C; pfam13478 398577002790 disulfide bond formation protein B; Provisional; Region: PRK02110 398577002791 amidase; Provisional; Region: PRK07056 398577002792 Amidase; Region: Amidase; cl11426 398577002793 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398577002794 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577002795 DNA-binding site [nucleotide binding]; DNA binding site 398577002796 FCD domain; Region: FCD; pfam07729 398577002797 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 398577002798 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 398577002799 catalytic triad [active] 398577002800 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 398577002801 citrate-proton symporter; Provisional; Region: PRK15075 398577002802 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577002803 putative substrate translocation pore; other site 398577002804 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 398577002805 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 398577002806 binding surface 398577002807 TPR motif; other site 398577002808 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 398577002809 TPR motif; other site 398577002810 binding surface 398577002811 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 398577002812 hypothetical protein; Provisional; Region: PRK06184 398577002813 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577002814 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 398577002815 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 398577002816 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 398577002817 catalytic loop [active] 398577002818 iron binding site [ion binding]; other site 398577002819 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 398577002820 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 398577002821 [4Fe-4S] binding site [ion binding]; other site 398577002822 molybdopterin cofactor binding site; other site 398577002823 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 398577002824 molybdopterin cofactor binding site; other site 398577002825 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 398577002826 putative dimer interface [polypeptide binding]; other site 398577002827 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 398577002828 SLBB domain; Region: SLBB; pfam10531 398577002829 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 398577002830 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 398577002831 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 398577002832 putative dimer interface [polypeptide binding]; other site 398577002833 [2Fe-2S] cluster binding site [ion binding]; other site 398577002834 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 398577002835 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 398577002836 PBP superfamily domain; Region: PBP_like; pfam12727 398577002837 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577002838 Helix-turn-helix domain; Region: HTH_17; pfam12728 398577002839 phosphoglycolate phosphatase; Provisional; Region: PRK13226 398577002840 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 398577002841 motif II; other site 398577002842 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 398577002843 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 398577002844 S-adenosylmethionine binding site [chemical binding]; other site 398577002845 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577002846 ligand binding site [chemical binding]; other site 398577002847 DNA gyrase subunit A; Validated; Region: PRK05560 398577002848 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 398577002849 CAP-like domain; other site 398577002850 active site 398577002851 primary dimer interface [polypeptide binding]; other site 398577002852 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398577002853 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398577002854 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398577002855 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398577002856 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398577002857 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398577002858 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 398577002859 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 398577002860 homodimer interface [polypeptide binding]; other site 398577002861 substrate-cofactor binding pocket; other site 398577002862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577002863 catalytic residue [active] 398577002864 Chorismate mutase type II; Region: CM_2; cl00693 398577002865 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 398577002866 Prephenate dehydratase; Region: PDT; pfam00800 398577002867 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 398577002868 putative L-Phe binding site [chemical binding]; other site 398577002869 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 398577002870 prephenate dehydrogenase; Validated; Region: PRK08507 398577002871 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 398577002872 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 398577002873 hinge; other site 398577002874 active site 398577002875 cytidylate kinase; Provisional; Region: cmk; PRK00023 398577002876 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 398577002877 CMP-binding site; other site 398577002878 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 398577002879 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 398577002880 RNA binding site [nucleotide binding]; other site 398577002881 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 398577002882 RNA binding site [nucleotide binding]; other site 398577002883 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 398577002884 RNA binding site [nucleotide binding]; other site 398577002885 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 398577002886 RNA binding site [nucleotide binding]; other site 398577002887 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 398577002888 RNA binding site [nucleotide binding]; other site 398577002889 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 398577002890 RNA binding site [nucleotide binding]; other site 398577002891 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 398577002892 IHF dimer interface [polypeptide binding]; other site 398577002893 IHF - DNA interface [nucleotide binding]; other site 398577002894 tetratricopeptide repeat protein; Provisional; Region: PRK11788 398577002895 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 398577002896 binding surface 398577002897 TPR motif; other site 398577002898 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 398577002899 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398577002900 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398577002901 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 398577002902 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 398577002903 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577002904 putative ribose interaction site [chemical binding]; other site 398577002905 putative ADP binding site [chemical binding]; other site 398577002906 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 398577002907 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 398577002908 NADP binding site [chemical binding]; other site 398577002909 homopentamer interface [polypeptide binding]; other site 398577002910 substrate binding site [chemical binding]; other site 398577002911 active site 398577002912 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 398577002913 cysteine synthase B; Region: cysM; TIGR01138 398577002914 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 398577002915 dimer interface [polypeptide binding]; other site 398577002916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577002917 catalytic residue [active] 398577002918 Transglycosylase SLT domain; Region: SLT_2; pfam13406 398577002919 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 398577002920 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577002921 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 398577002922 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 398577002923 putative active site [active] 398577002924 Zn binding site [ion binding]; other site 398577002925 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 398577002926 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577002927 Serine hydrolase; Region: Ser_hydrolase; cl17834 398577002928 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 398577002929 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 398577002930 Walker A/P-loop; other site 398577002931 ATP binding site [chemical binding]; other site 398577002932 Q-loop/lid; other site 398577002933 ABC transporter signature motif; other site 398577002934 Walker B; other site 398577002935 D-loop; other site 398577002936 H-loop/switch region; other site 398577002937 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 398577002938 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 398577002939 dimer interface [polypeptide binding]; other site 398577002940 conserved gate region; other site 398577002941 ABC-ATPase subunit interface; other site 398577002942 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 398577002943 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398577002944 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 398577002945 Ligand binding site [chemical binding]; other site 398577002946 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398577002947 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 398577002948 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 398577002949 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398577002950 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398577002951 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398577002952 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 398577002953 AsnC family; Region: AsnC_trans_reg; pfam01037 398577002954 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 398577002955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 398577002956 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 398577002957 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 398577002958 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 398577002959 RimM N-terminal domain; Region: RimM; pfam01782 398577002960 PRC-barrel domain; Region: PRC; pfam05239 398577002961 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 398577002962 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 398577002963 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 398577002964 putative active site [active] 398577002965 putative CoA binding site [chemical binding]; other site 398577002966 nudix motif; other site 398577002967 metal binding site [ion binding]; metal-binding site 398577002968 CobD/CbiB family protein; Provisional; Region: PRK07630 398577002969 GTPase RsgA; Reviewed; Region: PRK00098 398577002970 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 398577002971 RNA binding site [nucleotide binding]; other site 398577002972 homodimer interface [polypeptide binding]; other site 398577002973 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 398577002974 GTPase/Zn-binding domain interface [polypeptide binding]; other site 398577002975 GTP/Mg2+ binding site [chemical binding]; other site 398577002976 G4 box; other site 398577002977 G5 box; other site 398577002978 G1 box; other site 398577002979 Switch I region; other site 398577002980 G2 box; other site 398577002981 G3 box; other site 398577002982 Switch II region; other site 398577002983 Peptidase family M48; Region: Peptidase_M48; pfam01435 398577002984 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 398577002985 catalytic site [active] 398577002986 putative active site [active] 398577002987 putative substrate binding site [chemical binding]; other site 398577002988 dimer interface [polypeptide binding]; other site 398577002989 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 398577002990 MPT binding site; other site 398577002991 trimer interface [polypeptide binding]; other site 398577002992 hypothetical protein; Provisional; Region: PRK05255 398577002993 peptidase PmbA; Provisional; Region: PRK11040 398577002994 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 398577002995 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 398577002996 folate binding site [chemical binding]; other site 398577002997 NADP+ binding site [chemical binding]; other site 398577002998 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398577002999 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 398577003000 Walker A motif; other site 398577003001 ATP binding site [chemical binding]; other site 398577003002 Walker B motif; other site 398577003003 arginine finger; other site 398577003004 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 398577003005 thymidylate synthase; Provisional; Region: thyA; PRK13821 398577003006 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 398577003007 dimerization interface [polypeptide binding]; other site 398577003008 active site 398577003009 large tegument protein UL36; Provisional; Region: PHA03247 398577003010 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 398577003011 dimerization interface [polypeptide binding]; other site 398577003012 putative DNA binding site [nucleotide binding]; other site 398577003013 putative Zn2+ binding site [ion binding]; other site 398577003014 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 398577003015 fumarate hydratase; Reviewed; Region: fumC; PRK00485 398577003016 Class II fumarases; Region: Fumarase_classII; cd01362 398577003017 active site 398577003018 tetramer interface [polypeptide binding]; other site 398577003019 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 398577003020 putative efflux protein, MATE family; Region: matE; TIGR00797 398577003021 cation binding site [ion binding]; other site 398577003022 S4 domain; Region: S4_2; pfam13275 398577003023 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 398577003024 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 398577003025 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 398577003026 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577003027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577003028 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577003029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577003030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 398577003031 CreA protein; Region: CreA; pfam05981 398577003032 Ferredoxin [Energy production and conversion]; Region: COG1146 398577003033 4Fe-4S binding domain; Region: Fer4; cl02805 398577003034 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 398577003035 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 398577003036 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 398577003037 active site 398577003038 Uncharacterized conserved protein [Function unknown]; Region: COG1556 398577003039 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 398577003040 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398577003041 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 398577003042 dimerization interface [polypeptide binding]; other site 398577003043 ligand binding site [chemical binding]; other site 398577003044 NADP binding site [chemical binding]; other site 398577003045 catalytic site [active] 398577003046 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 398577003047 RmuC family; Region: RmuC; pfam02646 398577003048 putative acetyltransferase; Provisional; Region: PRK03624 398577003049 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577003050 Coenzyme A binding pocket [chemical binding]; other site 398577003051 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398577003052 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 398577003053 dimer interface [polypeptide binding]; other site 398577003054 putative functional site; other site 398577003055 putative MPT binding site; other site 398577003056 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 398577003057 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 398577003058 GTP binding site; other site 398577003059 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 398577003060 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 398577003061 FeS/SAM binding site; other site 398577003062 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 398577003063 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 398577003064 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398577003065 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 398577003066 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 398577003067 homodimer interface [polypeptide binding]; other site 398577003068 oligonucleotide binding site [chemical binding]; other site 398577003069 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 398577003070 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 398577003071 RNA binding surface [nucleotide binding]; other site 398577003072 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398577003073 active site 398577003074 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 398577003075 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 398577003076 motif II; other site 398577003077 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 398577003078 iron-sulfur cluster [ion binding]; other site 398577003079 [2Fe-2S] cluster binding site [ion binding]; other site 398577003080 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 398577003081 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 398577003082 tandem repeat interface [polypeptide binding]; other site 398577003083 oligomer interface [polypeptide binding]; other site 398577003084 active site residues [active] 398577003085 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 398577003086 putative SAM binding site [chemical binding]; other site 398577003087 homodimer interface [polypeptide binding]; other site 398577003088 Maf-like protein; Region: Maf; pfam02545 398577003089 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 398577003090 active site 398577003091 dimer interface [polypeptide binding]; other site 398577003092 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 398577003093 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 398577003094 putative phosphate acyltransferase; Provisional; Region: PRK05331 398577003095 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 398577003096 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 398577003097 dimer interface [polypeptide binding]; other site 398577003098 active site 398577003099 CoA binding pocket [chemical binding]; other site 398577003100 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 398577003101 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398577003102 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398577003103 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 398577003104 NAD(P) binding site [chemical binding]; other site 398577003105 homotetramer interface [polypeptide binding]; other site 398577003106 homodimer interface [polypeptide binding]; other site 398577003107 active site 398577003108 acyl carrier protein; Provisional; Region: acpP; PRK00982 398577003109 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 398577003110 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 398577003111 dimer interface [polypeptide binding]; other site 398577003112 active site 398577003113 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 398577003114 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577003115 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 398577003116 DNA binding residues [nucleotide binding] 398577003117 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 398577003118 anti-sigma E factor; Provisional; Region: rseB; PRK09455 398577003119 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 398577003120 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 398577003121 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398577003122 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 398577003123 protein binding site [polypeptide binding]; other site 398577003124 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 398577003125 protein binding site [polypeptide binding]; other site 398577003126 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 398577003127 GTP-binding protein LepA; Provisional; Region: PRK05433 398577003128 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 398577003129 G1 box; other site 398577003130 putative GEF interaction site [polypeptide binding]; other site 398577003131 GTP/Mg2+ binding site [chemical binding]; other site 398577003132 Switch I region; other site 398577003133 G2 box; other site 398577003134 G3 box; other site 398577003135 Switch II region; other site 398577003136 G4 box; other site 398577003137 G5 box; other site 398577003138 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 398577003139 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 398577003140 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 398577003141 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 398577003142 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 398577003143 Catalytic site [active] 398577003144 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 398577003145 ribonuclease III; Reviewed; Region: PRK12372 398577003146 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 398577003147 dimerization interface [polypeptide binding]; other site 398577003148 active site 398577003149 metal binding site [ion binding]; metal-binding site 398577003150 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 398577003151 GTPase Era; Reviewed; Region: era; PRK00089 398577003152 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 398577003153 G1 box; other site 398577003154 GTP/Mg2+ binding site [chemical binding]; other site 398577003155 Switch I region; other site 398577003156 G2 box; other site 398577003157 Switch II region; other site 398577003158 G3 box; other site 398577003159 G4 box; other site 398577003160 G5 box; other site 398577003161 KH domain; Region: KH_2; pfam07650 398577003162 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 398577003163 Recombination protein O N terminal; Region: RecO_N; pfam11967 398577003164 Recombination protein O C terminal; Region: RecO_C; pfam02565 398577003165 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 398577003166 active site 398577003167 hydrophilic channel; other site 398577003168 dimerization interface [polypeptide binding]; other site 398577003169 catalytic residues [active] 398577003170 active site lid [active] 398577003171 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 398577003172 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 398577003173 beta-hexosaminidase; Provisional; Region: PRK05337 398577003174 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398577003175 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 398577003176 active site 398577003177 phosphorylation site [posttranslational modification] 398577003178 intermolecular recognition site; other site 398577003179 dimerization interface [polypeptide binding]; other site 398577003180 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 398577003181 Walker A motif; other site 398577003182 ATP binding site [chemical binding]; other site 398577003183 Walker B motif; other site 398577003184 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577003185 elongation factor P; Validated; Region: PRK00529 398577003186 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 398577003187 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 398577003188 RNA binding site [nucleotide binding]; other site 398577003189 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 398577003190 RNA binding site [nucleotide binding]; other site 398577003191 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 398577003192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 398577003193 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 398577003194 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 398577003195 GIY-YIG motif/motif A; other site 398577003196 active site 398577003197 catalytic site [active] 398577003198 putative DNA binding site [nucleotide binding]; other site 398577003199 metal binding site [ion binding]; metal-binding site 398577003200 UvrB/uvrC motif; Region: UVR; pfam02151 398577003201 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 398577003202 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 398577003203 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 398577003204 Cache domain; Region: Cache_1; pfam02743 398577003205 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577003206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577003207 metal binding site [ion binding]; metal-binding site 398577003208 active site 398577003209 I-site; other site 398577003210 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 398577003211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398577003212 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 398577003213 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 398577003214 non-specific DNA binding site [nucleotide binding]; other site 398577003215 salt bridge; other site 398577003216 sequence-specific DNA binding site [nucleotide binding]; other site 398577003217 Cupin domain; Region: Cupin_2; pfam07883 398577003218 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 398577003219 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 398577003220 active site 398577003221 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 398577003222 LysR family transcriptional regulator; Provisional; Region: PRK14997 398577003223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577003224 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 398577003225 putative effector binding pocket; other site 398577003226 putative dimerization interface [polypeptide binding]; other site 398577003227 Pirin-related protein [General function prediction only]; Region: COG1741 398577003228 Pirin; Region: Pirin; pfam02678 398577003229 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398577003230 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577003231 Coenzyme A binding pocket [chemical binding]; other site 398577003232 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 398577003233 Protein of unknown function (DUF461); Region: DUF461; pfam04314 398577003234 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 398577003235 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577003236 Cu(I) binding site [ion binding]; other site 398577003237 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 398577003238 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 398577003239 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 398577003240 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 398577003241 active site 398577003242 homotetramer interface [polypeptide binding]; other site 398577003243 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 398577003244 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398577003245 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577003246 Walker A/P-loop; other site 398577003247 ATP binding site [chemical binding]; other site 398577003248 Q-loop/lid; other site 398577003249 ABC transporter signature motif; other site 398577003250 Walker B; other site 398577003251 D-loop; other site 398577003252 H-loop/switch region; other site 398577003253 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577003254 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 398577003255 putative ADP-binding pocket [chemical binding]; other site 398577003256 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 398577003257 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 398577003258 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 398577003259 active site 398577003260 tetramer interface [polypeptide binding]; other site 398577003261 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577003262 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 398577003263 DNA-binding site [nucleotide binding]; DNA binding site 398577003264 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398577003265 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577003266 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 398577003267 dimerization interface [polypeptide binding]; other site 398577003268 ligand binding site [chemical binding]; other site 398577003269 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 398577003270 Phosphoesterase family; Region: Phosphoesterase; pfam04185 398577003271 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398577003272 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398577003273 pyridoxamine kinase; Validated; Region: PRK05756 398577003274 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 398577003275 dimer interface [polypeptide binding]; other site 398577003276 pyridoxal binding site [chemical binding]; other site 398577003277 ATP binding site [chemical binding]; other site 398577003278 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577003279 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577003280 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 398577003281 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398577003282 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 398577003283 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 398577003284 ligand binding site; other site 398577003285 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 398577003286 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 398577003287 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 398577003288 B12 binding site [chemical binding]; other site 398577003289 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 398577003290 FeS/SAM binding site; other site 398577003291 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 398577003292 putative active site [active] 398577003293 YdjC motif; other site 398577003294 Mg binding site [ion binding]; other site 398577003295 putative homodimer interface [polypeptide binding]; other site 398577003296 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 398577003297 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 398577003298 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577003299 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 398577003300 dimer interface [polypeptide binding]; other site 398577003301 conserved gate region; other site 398577003302 putative PBP binding loops; other site 398577003303 ABC-ATPase subunit interface; other site 398577003304 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577003305 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 398577003306 dimer interface [polypeptide binding]; other site 398577003307 conserved gate region; other site 398577003308 putative PBP binding loops; other site 398577003309 ABC-ATPase subunit interface; other site 398577003310 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 398577003311 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577003312 Walker A/P-loop; other site 398577003313 ATP binding site [chemical binding]; other site 398577003314 Q-loop/lid; other site 398577003315 ABC transporter signature motif; other site 398577003316 Walker B; other site 398577003317 D-loop; other site 398577003318 H-loop/switch region; other site 398577003319 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398577003320 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577003321 conserved cys residue [active] 398577003322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577003323 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577003324 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 398577003325 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 398577003326 inhibitor-cofactor binding pocket; inhibition site 398577003327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577003328 catalytic residue [active] 398577003329 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 398577003330 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 398577003331 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 398577003332 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 398577003333 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 398577003334 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 398577003335 NAD(P) binding site [chemical binding]; other site 398577003336 catalytic residues [active] 398577003337 succinylarginine dihydrolase; Provisional; Region: PRK13281 398577003338 succinylglutamate desuccinylase; Provisional; Region: PRK05324 398577003339 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 398577003340 active site 398577003341 Zn binding site [ion binding]; other site 398577003342 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398577003343 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 398577003344 substrate binding pocket [chemical binding]; other site 398577003345 membrane-bound complex binding site; other site 398577003346 hinge residues; other site 398577003347 HDOD domain; Region: HDOD; pfam08668 398577003348 PAS domain; Region: PAS_9; pfam13426 398577003349 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 398577003350 putative active site [active] 398577003351 heme pocket [chemical binding]; other site 398577003352 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577003353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577003354 metal binding site [ion binding]; metal-binding site 398577003355 active site 398577003356 I-site; other site 398577003357 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 398577003358 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 398577003359 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577003360 catalytic triad [active] 398577003361 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 398577003362 NADH(P)-binding; Region: NAD_binding_10; pfam13460 398577003363 NAD(P) binding site [chemical binding]; other site 398577003364 putative active site [active] 398577003365 NYN domain; Region: NYN; pfam01936 398577003366 putative metal binding site [ion binding]; other site 398577003367 Uncharacterized conserved protein [Function unknown]; Region: COG1432 398577003368 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 398577003369 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 398577003370 active site 398577003371 metal binding site [ion binding]; metal-binding site 398577003372 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398577003373 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 398577003374 catalytic loop [active] 398577003375 iron binding site [ion binding]; other site 398577003376 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577003377 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398577003378 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577003379 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398577003380 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577003381 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577003382 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 398577003383 trimer interface [polypeptide binding]; other site 398577003384 eyelet of channel; other site 398577003385 Cupin; Region: Cupin_6; pfam12852 398577003386 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577003387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577003388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577003389 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 398577003390 Protein export membrane protein; Region: SecD_SecF; cl14618 398577003391 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 398577003392 Protein export membrane protein; Region: SecD_SecF; cl14618 398577003393 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 398577003394 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577003395 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577003396 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577003397 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577003398 hypothetical protein; Provisional; Region: PRK07236 398577003399 hypothetical protein; Provisional; Region: PRK06847 398577003400 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577003401 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 398577003402 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 398577003403 Predicted transcriptional regulator [Transcription]; Region: COG1959 398577003404 Transcriptional regulator; Region: Rrf2; pfam02082 398577003405 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 398577003406 NADH(P)-binding; Region: NAD_binding_10; pfam13460 398577003407 NAD binding site [chemical binding]; other site 398577003408 substrate binding site [chemical binding]; other site 398577003409 putative active site [active] 398577003410 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577003411 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 398577003412 putative DNA binding site [nucleotide binding]; other site 398577003413 putative Zn2+ binding site [ion binding]; other site 398577003414 AsnC family; Region: AsnC_trans_reg; pfam01037 398577003415 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 398577003416 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 398577003417 Walker A/P-loop; other site 398577003418 ATP binding site [chemical binding]; other site 398577003419 Q-loop/lid; other site 398577003420 ABC transporter signature motif; other site 398577003421 Walker B; other site 398577003422 D-loop; other site 398577003423 H-loop/switch region; other site 398577003424 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 398577003425 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 398577003426 dimer interface [polypeptide binding]; other site 398577003427 conserved gate region; other site 398577003428 putative PBP binding loops; other site 398577003429 ABC-ATPase subunit interface; other site 398577003430 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 398577003431 putative PBP binding loops; other site 398577003432 ABC-ATPase subunit interface; other site 398577003433 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398577003434 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398577003435 putative proline-specific permease; Provisional; Region: proY; PRK10580 398577003436 Spore germination protein; Region: Spore_permease; cl17796 398577003437 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 398577003438 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 398577003439 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 398577003440 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 398577003441 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 398577003442 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 398577003443 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 398577003444 Family description; Region: UvrD_C_2; pfam13538 398577003445 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 398577003446 AAA domain; Region: AAA_30; pfam13604 398577003447 Family description; Region: UvrD_C_2; pfam13538 398577003448 hypothetical protein; Provisional; Region: PRK09256 398577003449 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 398577003450 EamA-like transporter family; Region: EamA; pfam00892 398577003451 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398577003452 EamA-like transporter family; Region: EamA; pfam00892 398577003453 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 398577003454 ThiC-associated domain; Region: ThiC-associated; pfam13667 398577003455 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 398577003456 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 398577003457 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 398577003458 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 398577003459 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 398577003460 Moco binding site; other site 398577003461 metal coordination site [ion binding]; other site 398577003462 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 398577003463 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 398577003464 EamA-like transporter family; Region: EamA; pfam00892 398577003465 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398577003466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577003467 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 398577003468 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398577003469 active site 398577003470 metal binding site [ion binding]; metal-binding site 398577003471 hexamer interface [polypeptide binding]; other site 398577003472 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398577003473 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577003474 Walker A/P-loop; other site 398577003475 ATP binding site [chemical binding]; other site 398577003476 Q-loop/lid; other site 398577003477 ABC transporter signature motif; other site 398577003478 Walker B; other site 398577003479 D-loop; other site 398577003480 H-loop/switch region; other site 398577003481 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398577003482 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 398577003483 dimer interface [polypeptide binding]; other site 398577003484 conserved gate region; other site 398577003485 putative PBP binding loops; other site 398577003486 ABC-ATPase subunit interface; other site 398577003487 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 398577003488 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398577003489 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398577003490 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577003491 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577003492 DNA binding site [nucleotide binding] 398577003493 domain linker motif; other site 398577003494 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 398577003495 putative dimerization interface [polypeptide binding]; other site 398577003496 putative ligand binding site [chemical binding]; other site 398577003497 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398577003498 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 398577003499 SLBB domain; Region: SLBB; pfam10531 398577003500 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 398577003501 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398577003502 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 398577003503 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577003504 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 398577003505 putative active site [active] 398577003506 putative metal binding site [ion binding]; other site 398577003507 tyrosine kinase; Provisional; Region: PRK11519 398577003508 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 398577003509 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 398577003510 P loop; other site 398577003511 Nucleotide binding site [chemical binding]; other site 398577003512 DTAP/Switch II; other site 398577003513 Switch I; other site 398577003514 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 398577003515 O-Antigen ligase; Region: Wzy_C; pfam04932 398577003516 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 398577003517 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577003518 Bacterial sugar transferase; Region: Bac_transf; pfam02397 398577003519 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577003520 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 398577003521 putative ADP-binding pocket [chemical binding]; other site 398577003522 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 398577003523 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 398577003524 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 398577003525 Substrate binding site; other site 398577003526 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 398577003527 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398577003528 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 398577003529 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 398577003530 putative switch regulator; other site 398577003531 non-specific DNA interactions [nucleotide binding]; other site 398577003532 DNA binding site [nucleotide binding] 398577003533 sequence specific DNA binding site [nucleotide binding]; other site 398577003534 putative cAMP binding site [chemical binding]; other site 398577003535 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 398577003536 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 398577003537 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 398577003538 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 398577003539 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 398577003540 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 398577003541 tetramer interface [polypeptide binding]; other site 398577003542 TPP-binding site [chemical binding]; other site 398577003543 heterodimer interface [polypeptide binding]; other site 398577003544 phosphorylation loop region [posttranslational modification] 398577003545 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 398577003546 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 398577003547 alpha subunit interface [polypeptide binding]; other site 398577003548 TPP binding site [chemical binding]; other site 398577003549 heterodimer interface [polypeptide binding]; other site 398577003550 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398577003551 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 398577003552 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 398577003553 E3 interaction surface; other site 398577003554 lipoyl attachment site [posttranslational modification]; other site 398577003555 e3 binding domain; Region: E3_binding; pfam02817 398577003556 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398577003557 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 398577003558 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577003559 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577003560 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398577003561 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 398577003562 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 398577003563 NAD binding site [chemical binding]; other site 398577003564 active site 398577003565 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 398577003566 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 398577003567 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398577003568 Na binding site [ion binding]; other site 398577003569 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577003570 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 398577003571 trimer interface [polypeptide binding]; other site 398577003572 eyelet of channel; other site 398577003573 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577003574 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577003575 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 398577003576 dimerization interface [polypeptide binding]; other site 398577003577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577003578 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577003579 putative substrate translocation pore; other site 398577003580 allantoate amidohydrolase; Reviewed; Region: PRK12893 398577003581 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398577003582 active site 398577003583 metal binding site [ion binding]; metal-binding site 398577003584 dimer interface [polypeptide binding]; other site 398577003585 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 398577003586 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 398577003587 active site 398577003588 Zn binding site [ion binding]; other site 398577003589 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398577003590 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577003591 putative substrate translocation pore; other site 398577003592 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577003593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577003594 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 398577003595 dimerization interface [polypeptide binding]; other site 398577003596 substrate binding pocket [chemical binding]; other site 398577003597 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 398577003598 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 398577003599 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577003600 catalytic residue [active] 398577003601 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 398577003602 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 398577003603 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577003604 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 398577003605 dimerization interface [polypeptide binding]; other site 398577003606 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 398577003607 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 398577003608 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398577003609 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 398577003610 putative dimer interface [polypeptide binding]; other site 398577003611 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398577003612 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 398577003613 putative dimer interface [polypeptide binding]; other site 398577003614 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 398577003615 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398577003616 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577003617 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 398577003618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577003619 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 398577003620 dimerization interface [polypeptide binding]; other site 398577003621 Malonate transporter MadL subunit; Region: MadL; cl04273 398577003622 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 398577003623 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 398577003624 Coenzyme A transferase; Region: CoA_trans; cl17247 398577003625 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 398577003626 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 398577003627 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 398577003628 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 398577003629 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 398577003630 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 398577003631 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 398577003632 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 398577003633 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577003634 PLD-like domain; Region: PLDc_2; pfam13091 398577003635 putative active site [active] 398577003636 catalytic site [active] 398577003637 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398577003638 active site 398577003639 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 398577003640 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 398577003641 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577003642 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 398577003643 C-terminal domain interface [polypeptide binding]; other site 398577003644 GSH binding site (G-site) [chemical binding]; other site 398577003645 dimer interface [polypeptide binding]; other site 398577003646 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 398577003647 dimer interface [polypeptide binding]; other site 398577003648 N-terminal domain interface [polypeptide binding]; other site 398577003649 putative substrate binding pocket (H-site) [chemical binding]; other site 398577003650 proline/glycine betaine transporter; Provisional; Region: PRK10642 398577003651 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577003652 putative substrate translocation pore; other site 398577003653 hypothetical protein; Provisional; Region: PRK02237 398577003654 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 398577003655 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 398577003656 active site 398577003657 catalytic site [active] 398577003658 substrate binding site [chemical binding]; other site 398577003659 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 398577003660 RNA/DNA hybrid binding site [nucleotide binding]; other site 398577003661 active site 398577003662 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 398577003663 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 398577003664 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 398577003665 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 398577003666 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577003667 catalytic residue [active] 398577003668 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577003669 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577003670 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577003671 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577003672 putative substrate translocation pore; other site 398577003673 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 398577003674 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 398577003675 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 398577003676 catalytic site [active] 398577003677 subunit interface [polypeptide binding]; other site 398577003678 leucine export protein LeuE; Provisional; Region: PRK10958 398577003679 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 398577003680 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398577003681 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 398577003682 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 398577003683 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398577003684 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398577003685 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 398577003686 IMP binding site; other site 398577003687 dimer interface [polypeptide binding]; other site 398577003688 interdomain contacts; other site 398577003689 partial ornithine binding site; other site 398577003690 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 398577003691 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 398577003692 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398577003693 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 398577003694 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 398577003695 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 398577003696 FtsJ-like methyltransferase; Region: FtsJ; cl17430 398577003697 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 398577003698 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 398577003699 Walker A motif; other site 398577003700 ATP binding site [chemical binding]; other site 398577003701 Walker B motif; other site 398577003702 arginine finger; other site 398577003703 Peptidase family M41; Region: Peptidase_M41; pfam01434 398577003704 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 398577003705 dihydropteroate synthase; Region: DHPS; TIGR01496 398577003706 substrate binding pocket [chemical binding]; other site 398577003707 dimer interface [polypeptide binding]; other site 398577003708 inhibitor binding site; inhibition site 398577003709 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 398577003710 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 398577003711 active site 398577003712 substrate binding site [chemical binding]; other site 398577003713 metal binding site [ion binding]; metal-binding site 398577003714 PBP superfamily domain; Region: PBP_like_2; cl17296 398577003715 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 398577003716 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 398577003717 dimer interface [polypeptide binding]; other site 398577003718 conserved gate region; other site 398577003719 putative PBP binding loops; other site 398577003720 ABC-ATPase subunit interface; other site 398577003721 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 398577003722 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 398577003723 dimer interface [polypeptide binding]; other site 398577003724 conserved gate region; other site 398577003725 putative PBP binding loops; other site 398577003726 ABC-ATPase subunit interface; other site 398577003727 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 398577003728 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 398577003729 Walker A/P-loop; other site 398577003730 ATP binding site [chemical binding]; other site 398577003731 Q-loop/lid; other site 398577003732 ABC transporter signature motif; other site 398577003733 Walker B; other site 398577003734 D-loop; other site 398577003735 H-loop/switch region; other site 398577003736 transcriptional regulator PhoU; Provisional; Region: PRK11115 398577003737 PhoU domain; Region: PhoU; pfam01895 398577003738 PhoU domain; Region: PhoU; pfam01895 398577003739 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 398577003740 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 398577003741 active site 398577003742 phosphorylation site [posttranslational modification] 398577003743 intermolecular recognition site; other site 398577003744 dimerization interface [polypeptide binding]; other site 398577003745 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 398577003746 DNA binding site [nucleotide binding] 398577003747 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398577003748 PAS domain; Region: PAS; smart00091 398577003749 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 398577003750 dimer interface [polypeptide binding]; other site 398577003751 phosphorylation site [posttranslational modification] 398577003752 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 398577003753 ATP binding site [chemical binding]; other site 398577003754 Mg2+ binding site [ion binding]; other site 398577003755 G-X-G motif; other site 398577003756 polyphosphate kinase; Provisional; Region: PRK05443 398577003757 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 398577003758 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 398577003759 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577003760 putative active site [active] 398577003761 catalytic site [active] 398577003762 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 398577003763 putative domain interface [polypeptide binding]; other site 398577003764 putative active site [active] 398577003765 catalytic site [active] 398577003766 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 398577003767 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 398577003768 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 398577003769 short chain dehydrogenase; Provisional; Region: PRK05872 398577003770 classical (c) SDRs; Region: SDR_c; cd05233 398577003771 NAD(P) binding site [chemical binding]; other site 398577003772 active site 398577003773 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 398577003774 classical (c) SDRs; Region: SDR_c; cd05233 398577003775 NAD(P) binding site [chemical binding]; other site 398577003776 active site 398577003777 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577003778 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577003779 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577003780 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577003781 WHG domain; Region: WHG; pfam13305 398577003782 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 398577003783 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577003784 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577003785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577003786 NAD(P) binding site [chemical binding]; other site 398577003787 active site 398577003788 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398577003789 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577003790 putative substrate translocation pore; other site 398577003791 L-rhamnonate dehydratase; Provisional; Region: PRK15440 398577003792 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 398577003793 putative active site pocket [active] 398577003794 putative metal binding site [ion binding]; other site 398577003795 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577003796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577003797 NAD(P) binding site [chemical binding]; other site 398577003798 active site 398577003799 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398577003800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577003801 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398577003802 putative dimerization interface [polypeptide binding]; other site 398577003803 Domain of unknown function (DUF718); Region: DUF718; pfam05336 398577003804 Amidohydrolase; Region: Amidohydro_2; pfam04909 398577003805 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398577003806 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398577003807 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577003808 Walker A/P-loop; other site 398577003809 ATP binding site [chemical binding]; other site 398577003810 Q-loop/lid; other site 398577003811 ABC transporter signature motif; other site 398577003812 Walker B; other site 398577003813 D-loop; other site 398577003814 H-loop/switch region; other site 398577003815 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577003816 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577003817 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 398577003818 TM-ABC transporter signature motif; other site 398577003819 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577003820 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 398577003821 TM-ABC transporter signature motif; other site 398577003822 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 398577003823 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 398577003824 ligand binding site [chemical binding]; other site 398577003825 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 398577003826 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 398577003827 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 398577003828 catalytic core [active] 398577003829 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 398577003830 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 398577003831 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 398577003832 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 398577003833 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 398577003834 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398577003835 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 398577003836 active site 398577003837 acyl-activating enzyme (AAE) consensus motif; other site 398577003838 putative CoA binding site [chemical binding]; other site 398577003839 AMP binding site [chemical binding]; other site 398577003840 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 398577003841 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577003842 Peptidase family M23; Region: Peptidase_M23; pfam01551 398577003843 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 398577003844 active site 398577003845 catalytic residues [active] 398577003846 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 398577003847 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577003848 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 398577003849 DNA binding site [nucleotide binding] 398577003850 Predicted ATPase [General function prediction only]; Region: COG3903 398577003851 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 398577003852 Walker A motif; other site 398577003853 ATP binding site [chemical binding]; other site 398577003854 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577003855 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 398577003856 active site 398577003857 phosphorylation site [posttranslational modification] 398577003858 intermolecular recognition site; other site 398577003859 dimerization interface [polypeptide binding]; other site 398577003860 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 398577003861 DNA binding site [nucleotide binding] 398577003862 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 398577003863 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398577003864 active site 398577003865 ATP binding site [chemical binding]; other site 398577003866 substrate binding site [chemical binding]; other site 398577003867 activation loop (A-loop); other site 398577003868 AAA ATPase domain; Region: AAA_16; pfam13191 398577003869 Predicted ATPase [General function prediction only]; Region: COG3899 398577003870 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398577003871 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398577003872 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 398577003873 Histidine kinase; Region: HisKA_2; pfam07568 398577003874 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 398577003875 ATP binding site [chemical binding]; other site 398577003876 Mg2+ binding site [ion binding]; other site 398577003877 G-X-G motif; other site 398577003878 Response regulator receiver domain; Region: Response_reg; pfam00072 398577003879 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 398577003880 active site 398577003881 phosphorylation site [posttranslational modification] 398577003882 intermolecular recognition site; other site 398577003883 dimerization interface [polypeptide binding]; other site 398577003884 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 398577003885 PAS domain; Region: PAS_9; pfam13426 398577003886 putative active site [active] 398577003887 heme pocket [chemical binding]; other site 398577003888 PAS fold; Region: PAS_3; pfam08447 398577003889 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 398577003890 putative active site [active] 398577003891 heme pocket [chemical binding]; other site 398577003892 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398577003893 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 398577003894 putative active site [active] 398577003895 heme pocket [chemical binding]; other site 398577003896 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 398577003897 dimer interface [polypeptide binding]; other site 398577003898 phosphorylation site [posttranslational modification] 398577003899 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 398577003900 ATP binding site [chemical binding]; other site 398577003901 Mg2+ binding site [ion binding]; other site 398577003902 G-X-G motif; other site 398577003903 Response regulator receiver domain; Region: Response_reg; pfam00072 398577003904 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 398577003905 active site 398577003906 phosphorylation site [posttranslational modification] 398577003907 intermolecular recognition site; other site 398577003908 dimerization interface [polypeptide binding]; other site 398577003909 Response regulator receiver domain; Region: Response_reg; pfam00072 398577003910 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 398577003911 active site 398577003912 phosphorylation site [posttranslational modification] 398577003913 intermolecular recognition site; other site 398577003914 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577003915 dimerization interface [polypeptide binding]; other site 398577003916 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 398577003917 ATP binding site [chemical binding]; other site 398577003918 Mg2+ binding site [ion binding]; other site 398577003919 G-X-G motif; other site 398577003920 Killing trait; Region: RebB; pfam11747 398577003921 Killing trait; Region: RebB; pfam11747 398577003922 Killing trait; Region: RebB; pfam11747 398577003923 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398577003924 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 398577003925 ligand binding site [chemical binding]; other site 398577003926 flexible hinge region; other site 398577003927 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 398577003928 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 398577003929 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 398577003930 Killing trait; Region: RebB; pfam11747 398577003931 Domain of unknown function (DUF718); Region: DUF718; pfam05336 398577003932 galactarate dehydratase; Region: galactar-dH20; TIGR03248 398577003933 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398577003934 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398577003935 altronate oxidoreductase; Provisional; Region: PRK03643 398577003936 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 398577003937 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398577003938 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 398577003939 putative NAD(P) binding site [chemical binding]; other site 398577003940 catalytic Zn binding site [ion binding]; other site 398577003941 structural Zn binding site [ion binding]; other site 398577003942 Amidohydrolase; Region: Amidohydro_2; pfam04909 398577003943 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398577003944 active site 398577003945 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 398577003946 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577003947 active site 398577003948 catalytic tetrad [active] 398577003949 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398577003950 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 398577003951 putative ligand binding site [chemical binding]; other site 398577003952 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577003953 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 398577003954 TM-ABC transporter signature motif; other site 398577003955 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398577003956 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577003957 Walker A/P-loop; other site 398577003958 ATP binding site [chemical binding]; other site 398577003959 Q-loop/lid; other site 398577003960 ABC transporter signature motif; other site 398577003961 Walker B; other site 398577003962 D-loop; other site 398577003963 H-loop/switch region; other site 398577003964 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577003965 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398577003966 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577003967 DNA-binding site [nucleotide binding]; DNA binding site 398577003968 FCD domain; Region: FCD; pfam07729 398577003969 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 398577003970 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 398577003971 catalytic loop [active] 398577003972 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398577003973 iron binding site [ion binding]; other site 398577003974 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577003975 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398577003976 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398577003977 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577003978 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577003979 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398577003980 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398577003981 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577003982 active site 398577003983 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398577003984 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398577003985 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 398577003986 NAD(P) binding site [chemical binding]; other site 398577003987 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 398577003988 dimerization interface [polypeptide binding]; other site 398577003989 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 398577003990 dimer interface [polypeptide binding]; other site 398577003991 phosphorylation site [posttranslational modification] 398577003992 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 398577003993 ATP binding site [chemical binding]; other site 398577003994 Mg2+ binding site [ion binding]; other site 398577003995 G-X-G motif; other site 398577003996 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577003997 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 398577003998 active site 398577003999 phosphorylation site [posttranslational modification] 398577004000 intermolecular recognition site; other site 398577004001 dimerization interface [polypeptide binding]; other site 398577004002 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 398577004003 DNA binding site [nucleotide binding] 398577004004 MltA-interacting protein MipA; Region: MipA; cl01504 398577004005 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398577004006 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 398577004007 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577004008 catalytic residue [active] 398577004009 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 398577004010 VirB7 interaction site; other site 398577004011 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577004012 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 398577004013 trimer interface [polypeptide binding]; other site 398577004014 eyelet of channel; other site 398577004015 Flavin Reductases; Region: FlaRed; cl00801 398577004016 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577004017 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577004018 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 398577004019 putative dimerization interface [polypeptide binding]; other site 398577004020 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 398577004021 Citrate transporter; Region: CitMHS; pfam03600 398577004022 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 398577004023 Cache domain; Region: Cache_1; pfam02743 398577004024 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 398577004025 dimerization interface [polypeptide binding]; other site 398577004026 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577004027 dimer interface [polypeptide binding]; other site 398577004028 putative CheW interface [polypeptide binding]; other site 398577004029 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 398577004030 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 398577004031 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398577004032 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398577004033 putative acyl-acceptor binding pocket; other site 398577004034 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 398577004035 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 398577004036 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577004037 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 398577004038 S-adenosylmethionine binding site [chemical binding]; other site 398577004039 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 398577004040 active site 398577004041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577004042 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577004043 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577004044 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577004045 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577004046 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 398577004047 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK14690 398577004048 PAAR motif; Region: PAAR_motif; pfam05488 398577004049 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398577004050 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 398577004051 GAF domain; Region: GAF_2; pfam13185 398577004052 GAF domain; Region: GAF_3; pfam13492 398577004053 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577004054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577004055 metal binding site [ion binding]; metal-binding site 398577004056 active site 398577004057 I-site; other site 398577004058 cellulose synthase regulator protein; Provisional; Region: PRK11114 398577004059 endo-1,4-D-glucanase; Provisional; Region: PRK11097 398577004060 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398577004061 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 398577004062 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 398577004063 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 398577004064 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 398577004065 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 398577004066 DXD motif; other site 398577004067 PilZ domain; Region: PilZ; pfam07238 398577004068 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 398577004069 Pirin-related protein [General function prediction only]; Region: COG1741 398577004070 Pirin; Region: Pirin; pfam02678 398577004071 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398577004072 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 398577004073 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398577004074 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 398577004075 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 398577004076 Isochorismatase family; Region: Isochorismatase; pfam00857 398577004077 catalytic triad [active] 398577004078 dimer interface [polypeptide binding]; other site 398577004079 conserved cis-peptide bond; other site 398577004080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577004081 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577004082 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 398577004083 putative effector binding pocket; other site 398577004084 dimerization interface [polypeptide binding]; other site 398577004085 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 398577004086 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 398577004087 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 398577004088 active site 398577004089 Predicted membrane protein [Function unknown]; Region: COG2259 398577004090 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 398577004091 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 398577004092 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 398577004093 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 398577004094 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 398577004095 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 398577004096 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 398577004097 nudix motif; other site 398577004098 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 398577004099 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398577004100 active site 398577004101 HIGH motif; other site 398577004102 nucleotide binding site [chemical binding]; other site 398577004103 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 398577004104 KMSKS motif; other site 398577004105 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 398577004106 Serine hydrolase; Region: Ser_hydrolase; pfam06821 398577004107 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 398577004108 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577004109 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577004110 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 398577004111 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 398577004112 motif 1; other site 398577004113 active site 398577004114 motif 2; other site 398577004115 motif 3; other site 398577004116 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398577004117 DHHA1 domain; Region: DHHA1; pfam02272 398577004118 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577004119 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 398577004120 putative active site [active] 398577004121 catalytic site [active] 398577004122 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398577004123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577004124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577004125 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 398577004126 dimerization interface [polypeptide binding]; other site 398577004127 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 398577004128 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 398577004129 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 398577004130 nudix motif; other site 398577004131 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 398577004132 active site 398577004133 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 398577004134 TM-ABC transporter signature motif; other site 398577004135 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 398577004136 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 398577004137 TM-ABC transporter signature motif; other site 398577004138 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398577004139 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398577004140 Walker A/P-loop; other site 398577004141 ATP binding site [chemical binding]; other site 398577004142 Q-loop/lid; other site 398577004143 ABC transporter signature motif; other site 398577004144 Walker B; other site 398577004145 D-loop; other site 398577004146 H-loop/switch region; other site 398577004147 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398577004148 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398577004149 Walker A/P-loop; other site 398577004150 ATP binding site [chemical binding]; other site 398577004151 Q-loop/lid; other site 398577004152 ABC transporter signature motif; other site 398577004153 Walker B; other site 398577004154 D-loop; other site 398577004155 H-loop/switch region; other site 398577004156 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 398577004157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577004158 NAD(P) binding site [chemical binding]; other site 398577004159 active site 398577004160 hypothetical protein; Provisional; Region: PRK02487 398577004161 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 398577004162 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398577004163 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 398577004164 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398577004165 dimer interface [polypeptide binding]; other site 398577004166 PYR/PP interface [polypeptide binding]; other site 398577004167 TPP binding site [chemical binding]; other site 398577004168 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398577004169 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 398577004170 TPP-binding site [chemical binding]; other site 398577004171 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577004172 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 398577004173 substrate binding site [chemical binding]; other site 398577004174 ATP binding site [chemical binding]; other site 398577004175 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 398577004176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 398577004177 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 398577004178 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398577004179 putative ligand binding site [chemical binding]; other site 398577004180 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398577004181 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577004182 Walker A/P-loop; other site 398577004183 ATP binding site [chemical binding]; other site 398577004184 Q-loop/lid; other site 398577004185 ABC transporter signature motif; other site 398577004186 Walker B; other site 398577004187 D-loop; other site 398577004188 H-loop/switch region; other site 398577004189 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577004190 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 398577004191 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577004192 TM-ABC transporter signature motif; other site 398577004193 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398577004194 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398577004195 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398577004196 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 398577004197 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398577004198 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398577004199 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398577004200 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 398577004201 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398577004202 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398577004203 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 398577004204 putative active site [active] 398577004205 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398577004206 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398577004207 tetrameric interface [polypeptide binding]; other site 398577004208 NAD binding site [chemical binding]; other site 398577004209 catalytic residues [active] 398577004210 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577004211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577004212 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 398577004213 putative effector binding pocket; other site 398577004214 dimerization interface [polypeptide binding]; other site 398577004215 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 398577004216 CPxP motif; other site 398577004217 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577004218 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 398577004219 active site 398577004220 phosphorylation site [posttranslational modification] 398577004221 intermolecular recognition site; other site 398577004222 dimerization interface [polypeptide binding]; other site 398577004223 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 398577004224 DNA binding site [nucleotide binding] 398577004225 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 398577004226 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577004227 FecR protein; Region: FecR; pfam04773 398577004228 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 398577004229 CHASE2 domain; Region: CHASE2; pfam05226 398577004230 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398577004231 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 398577004232 dimer interface [polypeptide binding]; other site 398577004233 phosphorylation site [posttranslational modification] 398577004234 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 398577004235 ATP binding site [chemical binding]; other site 398577004236 Mg2+ binding site [ion binding]; other site 398577004237 G-X-G motif; other site 398577004238 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 398577004239 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398577004240 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 398577004241 active site 398577004242 tetramer interface; other site 398577004243 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 398577004244 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398577004245 HIGH motif; other site 398577004246 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 398577004247 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 398577004248 active site 398577004249 KMSKS motif; other site 398577004250 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 398577004251 tRNA binding surface [nucleotide binding]; other site 398577004252 anticodon binding site; other site 398577004253 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 398577004254 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 398577004255 Part of AAA domain; Region: AAA_19; pfam13245 398577004256 Family description; Region: UvrD_C_2; pfam13538 398577004257 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 398577004258 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 398577004259 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577004260 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577004261 putative substrate translocation pore; other site 398577004262 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398577004263 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577004264 dimer interface [polypeptide binding]; other site 398577004265 putative CheW interface [polypeptide binding]; other site 398577004266 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 398577004267 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577004268 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577004269 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 398577004270 Fusaric acid resistance protein family; Region: FUSC; pfam04632 398577004271 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 398577004272 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577004273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577004274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577004275 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 398577004276 putative effector binding pocket; other site 398577004277 dimerization interface [polypeptide binding]; other site 398577004278 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398577004279 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 398577004280 putative active site [active] 398577004281 putative metal binding site [ion binding]; other site 398577004282 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398577004283 FAD binding domain; Region: FAD_binding_4; pfam01565 398577004284 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 398577004285 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398577004286 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577004287 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 398577004288 Protein of unknown function (DUF962); Region: DUF962; cl01879 398577004289 FOG: CBS domain [General function prediction only]; Region: COG0517 398577004290 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 398577004291 H+ Antiporter protein; Region: 2A0121; TIGR00900 398577004292 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398577004293 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398577004294 putative acyl-acceptor binding pocket; other site 398577004295 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 398577004296 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 398577004297 Tetramer interface [polypeptide binding]; other site 398577004298 active site 398577004299 FMN-binding site [chemical binding]; other site 398577004300 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577004301 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577004302 DNA binding site [nucleotide binding] 398577004303 domain linker motif; other site 398577004304 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 398577004305 putative dimerization interface [polypeptide binding]; other site 398577004306 putative ligand binding site [chemical binding]; other site 398577004307 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577004308 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 398577004309 substrate binding site [chemical binding]; other site 398577004310 dimer interface [polypeptide binding]; other site 398577004311 ATP binding site [chemical binding]; other site 398577004312 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577004313 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 398577004314 putative substrate translocation pore; other site 398577004315 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398577004316 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398577004317 inhibitor site; inhibition site 398577004318 active site 398577004319 dimer interface [polypeptide binding]; other site 398577004320 catalytic residue [active] 398577004321 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 398577004322 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577004323 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 398577004324 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 398577004325 short chain dehydrogenase; Provisional; Region: PRK06949 398577004326 classical (c) SDRs; Region: SDR_c; cd05233 398577004327 NAD(P) binding site [chemical binding]; other site 398577004328 active site 398577004329 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 398577004330 active site 398577004331 PAS domain; Region: PAS_9; pfam13426 398577004332 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 398577004333 putative active site [active] 398577004334 heme pocket [chemical binding]; other site 398577004335 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 398577004336 DNA binding residues [nucleotide binding] 398577004337 dimerization interface [polypeptide binding]; other site 398577004338 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 398577004339 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 398577004340 short chain dehydrogenase; Provisional; Region: PRK07041 398577004341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577004342 NAD(P) binding site [chemical binding]; other site 398577004343 active site 398577004344 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 398577004345 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 398577004346 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 398577004347 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577004348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577004349 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 398577004350 putative effector binding pocket; other site 398577004351 dimerization interface [polypeptide binding]; other site 398577004352 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577004353 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577004354 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 398577004355 homotrimer interaction site [polypeptide binding]; other site 398577004356 putative active site [active] 398577004357 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398577004358 HD domain; Region: HD_4; pfam13328 398577004359 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 398577004360 synthetase active site [active] 398577004361 NTP binding site [chemical binding]; other site 398577004362 metal binding site [ion binding]; metal-binding site 398577004363 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 398577004364 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 398577004365 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 398577004366 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 398577004367 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398577004368 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 398577004369 active site 398577004370 dimer interface [polypeptide binding]; other site 398577004371 motif 1; other site 398577004372 motif 2; other site 398577004373 motif 3; other site 398577004374 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 398577004375 anticodon binding site; other site 398577004376 translation initiation factor IF-3; Region: infC; TIGR00168 398577004377 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 398577004378 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 398577004379 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 398577004380 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 398577004381 23S rRNA binding site [nucleotide binding]; other site 398577004382 L21 binding site [polypeptide binding]; other site 398577004383 L13 binding site [polypeptide binding]; other site 398577004384 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 398577004385 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 398577004386 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 398577004387 dimer interface [polypeptide binding]; other site 398577004388 motif 1; other site 398577004389 active site 398577004390 motif 2; other site 398577004391 motif 3; other site 398577004392 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 398577004393 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 398577004394 putative tRNA-binding site [nucleotide binding]; other site 398577004395 B3/4 domain; Region: B3_4; pfam03483 398577004396 tRNA synthetase B5 domain; Region: B5; smart00874 398577004397 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 398577004398 dimer interface [polypeptide binding]; other site 398577004399 motif 1; other site 398577004400 motif 3; other site 398577004401 motif 2; other site 398577004402 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 398577004403 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 398577004404 IHF dimer interface [polypeptide binding]; other site 398577004405 IHF - DNA interface [nucleotide binding]; other site 398577004406 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 398577004407 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398577004408 DNA binding residues [nucleotide binding] 398577004409 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398577004410 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 398577004411 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 398577004412 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 398577004413 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 398577004414 Uncharacterized conserved protein [Function unknown]; Region: COG1434 398577004415 putative active site [active] 398577004416 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398577004417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577004418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577004419 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 398577004420 putative dimerization interface [polypeptide binding]; other site 398577004421 aspartate aminotransferase; Provisional; Region: PRK06108 398577004422 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 398577004423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577004424 homodimer interface [polypeptide binding]; other site 398577004425 catalytic residue [active] 398577004426 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 398577004427 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398577004428 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 398577004429 RNA binding surface [nucleotide binding]; other site 398577004430 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 398577004431 probable active site [active] 398577004432 ribosome maturation protein RimP; Reviewed; Region: PRK00092 398577004433 Sm and related proteins; Region: Sm_like; cl00259 398577004434 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 398577004435 putative oligomer interface [polypeptide binding]; other site 398577004436 putative RNA binding site [nucleotide binding]; other site 398577004437 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 398577004438 NusA N-terminal domain; Region: NusA_N; pfam08529 398577004439 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 398577004440 RNA binding site [nucleotide binding]; other site 398577004441 homodimer interface [polypeptide binding]; other site 398577004442 NusA-like KH domain; Region: KH_5; pfam13184 398577004443 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 398577004444 G-X-X-G motif; other site 398577004445 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 398577004446 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 398577004447 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 398577004448 translation initiation factor IF-2; Region: IF-2; TIGR00487 398577004449 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 398577004450 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 398577004451 G1 box; other site 398577004452 putative GEF interaction site [polypeptide binding]; other site 398577004453 GTP/Mg2+ binding site [chemical binding]; other site 398577004454 Switch I region; other site 398577004455 G2 box; other site 398577004456 G3 box; other site 398577004457 Switch II region; other site 398577004458 G4 box; other site 398577004459 G5 box; other site 398577004460 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 398577004461 Translation-initiation factor 2; Region: IF-2; pfam11987 398577004462 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 398577004463 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 398577004464 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 398577004465 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 398577004466 RNA binding site [nucleotide binding]; other site 398577004467 active site 398577004468 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 398577004469 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577004470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577004471 putative substrate translocation pore; other site 398577004472 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577004473 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 398577004474 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577004475 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577004476 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577004477 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398577004478 MarR family; Region: MarR_2; cl17246 398577004479 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 398577004480 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 398577004481 G1 box; other site 398577004482 putative GEF interaction site [polypeptide binding]; other site 398577004483 GTP/Mg2+ binding site [chemical binding]; other site 398577004484 Switch I region; other site 398577004485 G2 box; other site 398577004486 G3 box; other site 398577004487 Switch II region; other site 398577004488 G4 box; other site 398577004489 G5 box; other site 398577004490 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 398577004491 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 398577004492 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 398577004493 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 398577004494 TPP-binding site [chemical binding]; other site 398577004495 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 398577004496 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 398577004497 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 398577004498 E3 interaction surface; other site 398577004499 lipoyl attachment site [posttranslational modification]; other site 398577004500 e3 binding domain; Region: E3_binding; pfam02817 398577004501 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398577004502 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 398577004503 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577004504 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398577004505 Predicted ATPase [General function prediction only]; Region: COG1485 398577004506 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577004507 Walker B; other site 398577004508 D-loop; other site 398577004509 H-loop/switch region; other site 398577004510 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398577004511 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 398577004512 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 398577004513 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 398577004514 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 398577004515 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 398577004516 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 398577004517 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 398577004518 TadE-like protein; Region: TadE; pfam07811 398577004519 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398577004520 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 398577004521 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 398577004522 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 398577004523 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398577004524 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398577004525 AAA domain; Region: AAA_31; pfam13614 398577004526 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 398577004527 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 398577004528 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 398577004529 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 398577004530 ATP binding site [chemical binding]; other site 398577004531 Walker A motif; other site 398577004532 hexamer interface [polypeptide binding]; other site 398577004533 Walker B motif; other site 398577004534 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 398577004535 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577004536 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 398577004537 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577004538 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 398577004539 binding surface 398577004540 TPR motif; other site 398577004541 TPR repeat; Region: TPR_11; pfam13414 398577004542 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 398577004543 binding surface 398577004544 TPR motif; other site 398577004545 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 398577004546 Predicted membrane protein [Function unknown]; Region: COG4655 398577004547 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 398577004548 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 398577004549 Walker A motif; other site 398577004550 ATP binding site [chemical binding]; other site 398577004551 Walker B motif; other site 398577004552 arginine finger; other site 398577004553 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577004554 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 398577004555 bacterial Hfq-like; Region: Hfq; cd01716 398577004556 hexamer interface [polypeptide binding]; other site 398577004557 Sm1 motif; other site 398577004558 RNA binding site [nucleotide binding]; other site 398577004559 Sm2 motif; other site 398577004560 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 398577004561 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 398577004562 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398577004563 acyl-activating enzyme (AAE) consensus motif; other site 398577004564 putative AMP binding site [chemical binding]; other site 398577004565 putative active site [active] 398577004566 putative CoA binding site [chemical binding]; other site 398577004567 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577004568 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577004569 putative sialic acid transporter; Region: 2A0112; TIGR00891 398577004570 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577004571 putative substrate translocation pore; other site 398577004572 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398577004573 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 398577004574 high affinity sulphate transporter 1; Region: sulP; TIGR00815 398577004575 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 398577004576 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398577004577 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 398577004578 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577004579 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 398577004580 putative substrate binding site [chemical binding]; other site 398577004581 putative ATP binding site [chemical binding]; other site 398577004582 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 398577004583 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398577004584 putative ligand binding site [chemical binding]; other site 398577004585 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577004586 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 398577004587 TM-ABC transporter signature motif; other site 398577004588 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398577004589 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577004590 Walker A/P-loop; other site 398577004591 ATP binding site [chemical binding]; other site 398577004592 Q-loop/lid; other site 398577004593 ABC transporter signature motif; other site 398577004594 Walker B; other site 398577004595 D-loop; other site 398577004596 H-loop/switch region; other site 398577004597 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577004598 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 398577004599 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 398577004600 ribonuclease R; Region: RNase_R; TIGR02063 398577004601 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 398577004602 RNB domain; Region: RNB; pfam00773 398577004603 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 398577004604 RNA binding site [nucleotide binding]; other site 398577004605 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 398577004606 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 398577004607 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398577004608 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 398577004609 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 398577004610 amidase catalytic site [active] 398577004611 Zn binding residues [ion binding]; other site 398577004612 substrate binding site [chemical binding]; other site 398577004613 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 398577004614 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 398577004615 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398577004616 active site 398577004617 dimer interface [polypeptide binding]; other site 398577004618 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398577004619 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577004620 DNA-binding site [nucleotide binding]; DNA binding site 398577004621 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398577004622 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398577004623 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398577004624 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577004625 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 398577004626 dimer interface [polypeptide binding]; other site 398577004627 conserved gate region; other site 398577004628 putative PBP binding loops; other site 398577004629 ABC-ATPase subunit interface; other site 398577004630 cystine transporter subunit; Provisional; Region: PRK11260 398577004631 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 398577004632 substrate binding pocket [chemical binding]; other site 398577004633 membrane-bound complex binding site; other site 398577004634 hinge residues; other site 398577004635 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 398577004636 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 398577004637 quinone interaction residues [chemical binding]; other site 398577004638 active site 398577004639 catalytic residues [active] 398577004640 FMN binding site [chemical binding]; other site 398577004641 substrate binding site [chemical binding]; other site 398577004642 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 398577004643 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 398577004644 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 398577004645 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 398577004646 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 398577004647 nudix motif; other site 398577004648 hypothetical protein; Provisional; Region: PRK02487 398577004649 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 398577004650 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 398577004651 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 398577004652 substrate binding site [chemical binding]; other site 398577004653 oxyanion hole (OAH) forming residues; other site 398577004654 trimer interface [polypeptide binding]; other site 398577004655 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 398577004656 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 398577004657 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 398577004658 active site 398577004659 dimer interface [polypeptide binding]; other site 398577004660 non-prolyl cis peptide bond; other site 398577004661 insertion regions; other site 398577004662 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398577004663 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 398577004664 dimer interface [polypeptide binding]; other site 398577004665 conserved gate region; other site 398577004666 putative PBP binding loops; other site 398577004667 ABC-ATPase subunit interface; other site 398577004668 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 398577004669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577004670 Walker A/P-loop; other site 398577004671 ATP binding site [chemical binding]; other site 398577004672 Q-loop/lid; other site 398577004673 ABC transporter signature motif; other site 398577004674 Walker B; other site 398577004675 D-loop; other site 398577004676 H-loop/switch region; other site 398577004677 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 398577004678 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 398577004679 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 398577004680 FMN binding site [chemical binding]; other site 398577004681 active site 398577004682 catalytic residues [active] 398577004683 substrate binding site [chemical binding]; other site 398577004684 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398577004685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577004686 Coenzyme A binding pocket [chemical binding]; other site 398577004687 Family of unknown function (DUF695); Region: DUF695; pfam05117 398577004688 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 398577004689 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 398577004690 putative dimer interface [polypeptide binding]; other site 398577004691 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577004692 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 398577004693 PLD-like domain; Region: PLDc_2; pfam13091 398577004694 putative active site [active] 398577004695 catalytic site [active] 398577004696 Predicted transcriptional regulators [Transcription]; Region: COG1733 398577004697 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 398577004698 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 398577004699 CoenzymeA binding site [chemical binding]; other site 398577004700 subunit interaction site [polypeptide binding]; other site 398577004701 PHB binding site; other site 398577004702 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 398577004703 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577004704 active site 398577004705 catalytic tetrad [active] 398577004706 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577004707 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577004708 putative substrate translocation pore; other site 398577004709 hypothetical protein; Provisional; Region: PRK07079 398577004710 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 398577004711 metal binding site [ion binding]; metal-binding site 398577004712 putative dimer interface [polypeptide binding]; other site 398577004713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577004714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577004715 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 398577004716 dimerization interface [polypeptide binding]; other site 398577004717 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 398577004718 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 398577004719 active site residue [active] 398577004720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577004721 Walker A/P-loop; other site 398577004722 ATP binding site [chemical binding]; other site 398577004723 Q-loop/lid; other site 398577004724 Predicted permease; Region: DUF318; cl17795 398577004725 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 398577004726 ABC-2 type transporter; Region: ABC2_membrane; cl17235 398577004727 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398577004728 nodulation ABC transporter NodI; Provisional; Region: PRK13537 398577004729 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 398577004730 Walker A/P-loop; other site 398577004731 ATP binding site [chemical binding]; other site 398577004732 Q-loop/lid; other site 398577004733 ABC transporter signature motif; other site 398577004734 Walker B; other site 398577004735 D-loop; other site 398577004736 H-loop/switch region; other site 398577004737 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 398577004738 Ligand Binding Site [chemical binding]; other site 398577004739 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 398577004740 LexA repressor; Validated; Region: PRK00215 398577004741 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 398577004742 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 398577004743 Catalytic site [active] 398577004744 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 398577004745 substrate binding pocket [chemical binding]; other site 398577004746 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398577004747 membrane-bound complex binding site; other site 398577004748 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398577004749 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 398577004750 dimer interface [polypeptide binding]; other site 398577004751 conserved gate region; other site 398577004752 putative PBP binding loops; other site 398577004753 ABC-ATPase subunit interface; other site 398577004754 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398577004755 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 398577004756 dimer interface [polypeptide binding]; other site 398577004757 conserved gate region; other site 398577004758 putative PBP binding loops; other site 398577004759 ABC-ATPase subunit interface; other site 398577004760 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 398577004761 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 398577004762 Walker A/P-loop; other site 398577004763 ATP binding site [chemical binding]; other site 398577004764 Q-loop/lid; other site 398577004765 ABC transporter signature motif; other site 398577004766 Walker B; other site 398577004767 D-loop; other site 398577004768 H-loop/switch region; other site 398577004769 TOBE-like domain; Region: TOBE_3; pfam12857 398577004770 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 398577004771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577004772 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 398577004773 substrate binding site [chemical binding]; other site 398577004774 dimerization interface [polypeptide binding]; other site 398577004775 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 398577004776 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398577004777 ligand binding site [chemical binding]; other site 398577004778 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398577004779 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577004780 Walker A/P-loop; other site 398577004781 ATP binding site [chemical binding]; other site 398577004782 Q-loop/lid; other site 398577004783 ABC transporter signature motif; other site 398577004784 Walker B; other site 398577004785 D-loop; other site 398577004786 H-loop/switch region; other site 398577004787 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577004788 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577004789 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 398577004790 TM-ABC transporter signature motif; other site 398577004791 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577004792 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577004793 DNA binding site [nucleotide binding] 398577004794 domain linker motif; other site 398577004795 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 398577004796 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577004797 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 398577004798 substrate binding site [chemical binding]; other site 398577004799 dimer interface [polypeptide binding]; other site 398577004800 ATP binding site [chemical binding]; other site 398577004801 Tar ligand binding domain homologue; Region: TarH; pfam02203 398577004802 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577004803 dimer interface [polypeptide binding]; other site 398577004804 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 398577004805 putative CheW interface [polypeptide binding]; other site 398577004806 PrkA family serine protein kinase; Provisional; Region: PRK15455 398577004807 AAA ATPase domain; Region: AAA_16; pfam13191 398577004808 Walker A motif; other site 398577004809 ATP binding site [chemical binding]; other site 398577004810 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 398577004811 hypothetical protein; Provisional; Region: PRK05325 398577004812 SpoVR family protein; Provisional; Region: PRK11767 398577004813 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 398577004814 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 398577004815 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577004816 putative substrate translocation pore; other site 398577004817 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577004818 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398577004819 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398577004820 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398577004821 PapC N-terminal domain; Region: PapC_N; pfam13954 398577004822 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398577004823 PapC C-terminal domain; Region: PapC_C; pfam13953 398577004824 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 398577004825 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398577004826 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398577004827 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 398577004828 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 398577004829 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577004830 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577004831 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 398577004832 substrate binding pocket [chemical binding]; other site 398577004833 membrane-bound complex binding site; other site 398577004834 hinge residues; other site 398577004835 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 398577004836 dimer interface [polypeptide binding]; other site 398577004837 conserved gate region; other site 398577004838 putative PBP binding loops; other site 398577004839 ABC-ATPase subunit interface; other site 398577004840 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 398577004841 dimer interface [polypeptide binding]; other site 398577004842 conserved gate region; other site 398577004843 putative PBP binding loops; other site 398577004844 ABC-ATPase subunit interface; other site 398577004845 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398577004846 Peptidase family M23; Region: Peptidase_M23; pfam01551 398577004847 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 398577004848 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577004849 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 398577004850 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577004851 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577004852 multidrug efflux protein; Reviewed; Region: PRK09577 398577004853 Protein export membrane protein; Region: SecD_SecF; cl14618 398577004854 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 398577004855 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577004856 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398577004857 PapC N-terminal domain; Region: PapC_N; pfam13954 398577004858 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398577004859 PapC C-terminal domain; Region: PapC_C; pfam13953 398577004860 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 398577004861 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398577004862 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398577004863 Fimbrial protein; Region: Fimbrial; pfam00419 398577004864 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 398577004865 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577004866 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 398577004867 MbtH-like protein; Region: MbtH; cl01279 398577004868 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 398577004869 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398577004870 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398577004871 Walker A/P-loop; other site 398577004872 ATP binding site [chemical binding]; other site 398577004873 Q-loop/lid; other site 398577004874 ABC transporter signature motif; other site 398577004875 Walker B; other site 398577004876 D-loop; other site 398577004877 H-loop/switch region; other site 398577004878 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398577004879 FecCD transport family; Region: FecCD; pfam01032 398577004880 ABC-ATPase subunit interface; other site 398577004881 dimer interface [polypeptide binding]; other site 398577004882 putative PBP binding regions; other site 398577004883 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 398577004884 ABC-ATPase subunit interface; other site 398577004885 dimer interface [polypeptide binding]; other site 398577004886 putative PBP binding regions; other site 398577004887 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 398577004888 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 398577004889 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 398577004890 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 398577004891 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 398577004892 siderophore binding site; other site 398577004893 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 398577004894 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 398577004895 Walker A/P-loop; other site 398577004896 ATP binding site [chemical binding]; other site 398577004897 Q-loop/lid; other site 398577004898 ABC transporter signature motif; other site 398577004899 Walker B; other site 398577004900 D-loop; other site 398577004901 H-loop/switch region; other site 398577004902 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398577004903 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 398577004904 acyl-activating enzyme (AAE) consensus motif; other site 398577004905 AMP binding site [chemical binding]; other site 398577004906 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398577004907 Condensation domain; Region: Condensation; pfam00668 398577004908 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 398577004909 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398577004910 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398577004911 acyl-activating enzyme (AAE) consensus motif; other site 398577004912 AMP binding site [chemical binding]; other site 398577004913 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398577004914 Condensation domain; Region: Condensation; pfam00668 398577004915 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 398577004916 Condensation domain; Region: Condensation; pfam00668 398577004917 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398577004918 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 398577004919 acyl-activating enzyme (AAE) consensus motif; other site 398577004920 AMP binding site [chemical binding]; other site 398577004921 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398577004922 Condensation domain; Region: Condensation; pfam00668 398577004923 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 398577004924 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398577004925 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 398577004926 acyl-activating enzyme (AAE) consensus motif; other site 398577004927 AMP binding site [chemical binding]; other site 398577004928 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398577004929 Condensation domain; Region: Condensation; pfam00668 398577004930 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 398577004931 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 398577004932 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 398577004933 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 398577004934 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 398577004935 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577004936 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 398577004937 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 398577004938 N-terminal plug; other site 398577004939 ligand-binding site [chemical binding]; other site 398577004940 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 398577004941 catalytic site [active] 398577004942 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 398577004943 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 398577004944 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 398577004945 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 398577004946 oligomeric interface; other site 398577004947 putative active site [active] 398577004948 homodimer interface [polypeptide binding]; other site 398577004949 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 398577004950 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 398577004951 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398577004952 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398577004953 metal binding site [ion binding]; metal-binding site 398577004954 putative dimer interface [polypeptide binding]; other site 398577004955 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 398577004956 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 398577004957 catalytic triad [active] 398577004958 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 398577004959 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 398577004960 homodimer interface [polypeptide binding]; other site 398577004961 Walker A motif; other site 398577004962 ATP binding site [chemical binding]; other site 398577004963 hydroxycobalamin binding site [chemical binding]; other site 398577004964 Walker B motif; other site 398577004965 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 398577004966 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 398577004967 active site 398577004968 SAM binding site [chemical binding]; other site 398577004969 homodimer interface [polypeptide binding]; other site 398577004970 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 398577004971 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 398577004972 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398577004973 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 398577004974 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 398577004975 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398577004976 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 398577004977 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 398577004978 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 398577004979 Walker A motif; other site 398577004980 ATP binding site [chemical binding]; other site 398577004981 Walker B motif; other site 398577004982 arginine finger; other site 398577004983 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 398577004984 metal ion-dependent adhesion site (MIDAS); other site 398577004985 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 398577004986 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 398577004987 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 398577004988 active site 398577004989 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 398577004990 nudix motif; other site 398577004991 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577004992 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577004993 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 398577004994 Citrate transporter; Region: CitMHS; pfam03600 398577004995 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577004996 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577004997 active site 398577004998 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398577004999 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577005000 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577005001 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 398577005002 active site 398577005003 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 398577005004 aromatic chitin/cellulose binding site residues [chemical binding]; other site 398577005005 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 398577005006 aromatic chitin/cellulose binding site residues [chemical binding]; other site 398577005007 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 398577005008 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 398577005009 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 398577005010 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 398577005011 active site 398577005012 SAM binding site [chemical binding]; other site 398577005013 homodimer interface [polypeptide binding]; other site 398577005014 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 398577005015 active site 398577005016 SAM binding site [chemical binding]; other site 398577005017 homodimer interface [polypeptide binding]; other site 398577005018 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 398577005019 Precorrin-8X methylmutase; Region: CbiC; pfam02570 398577005020 precorrin-3B synthase; Region: CobG; TIGR02435 398577005021 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398577005022 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398577005023 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 398577005024 active site 398577005025 putative homodimer interface [polypeptide binding]; other site 398577005026 SAM binding site [chemical binding]; other site 398577005027 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 398577005028 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 398577005029 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 398577005030 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 398577005031 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 398577005032 active site 398577005033 SAM binding site [chemical binding]; other site 398577005034 homodimer interface [polypeptide binding]; other site 398577005035 cyanate transporter; Region: CynX; TIGR00896 398577005036 Probable transposase; Region: OrfB_IS605; pfam01385 398577005037 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577005038 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577005039 MarR family; Region: MarR_2; cl17246 398577005040 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577005041 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 398577005042 C-terminal domain interface [polypeptide binding]; other site 398577005043 GSH binding site (G-site) [chemical binding]; other site 398577005044 dimer interface [polypeptide binding]; other site 398577005045 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 398577005046 dimer interface [polypeptide binding]; other site 398577005047 N-terminal domain interface [polypeptide binding]; other site 398577005048 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577005049 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 398577005050 trimer interface [polypeptide binding]; other site 398577005051 eyelet of channel; other site 398577005052 AAA domain; Region: AAA_22; pfam13401 398577005053 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577005054 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 398577005055 DNA binding residues [nucleotide binding] 398577005056 dimerization interface [polypeptide binding]; other site 398577005057 Universal stress protein family; Region: Usp; pfam00582 398577005058 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 398577005059 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 398577005060 NADP binding site [chemical binding]; other site 398577005061 dimer interface [polypeptide binding]; other site 398577005062 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 398577005063 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398577005064 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 398577005065 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577005066 putative substrate translocation pore; other site 398577005067 Serine hydrolase; Region: Ser_hydrolase; pfam06821 398577005068 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398577005069 hypothetical protein; Provisional; Region: PRK11622 398577005070 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398577005071 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577005072 Walker A/P-loop; other site 398577005073 ATP binding site [chemical binding]; other site 398577005074 Q-loop/lid; other site 398577005075 ABC transporter signature motif; other site 398577005076 Walker B; other site 398577005077 D-loop; other site 398577005078 H-loop/switch region; other site 398577005079 TOBE domain; Region: TOBE_2; pfam08402 398577005080 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398577005081 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 398577005082 dimer interface [polypeptide binding]; other site 398577005083 conserved gate region; other site 398577005084 putative PBP binding loops; other site 398577005085 ABC-ATPase subunit interface; other site 398577005086 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398577005087 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 398577005088 dimer interface [polypeptide binding]; other site 398577005089 conserved gate region; other site 398577005090 putative PBP binding loops; other site 398577005091 ABC-ATPase subunit interface; other site 398577005092 Probable transposase; Region: OrfB_IS605; pfam01385 398577005093 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577005094 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577005095 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577005096 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 398577005097 putative ligand binding site [chemical binding]; other site 398577005098 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577005099 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 398577005100 dimerization interface [polypeptide binding]; other site 398577005101 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 398577005102 dimer interface [polypeptide binding]; other site 398577005103 phosphorylation site [posttranslational modification] 398577005104 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 398577005105 ATP binding site [chemical binding]; other site 398577005106 Mg2+ binding site [ion binding]; other site 398577005107 G-X-G motif; other site 398577005108 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398577005109 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 398577005110 active site 398577005111 phosphorylation site [posttranslational modification] 398577005112 intermolecular recognition site; other site 398577005113 dimerization interface [polypeptide binding]; other site 398577005114 Response regulator receiver domain; Region: Response_reg; pfam00072 398577005115 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 398577005116 active site 398577005117 phosphorylation site [posttranslational modification] 398577005118 intermolecular recognition site; other site 398577005119 dimerization interface [polypeptide binding]; other site 398577005120 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 398577005121 putative binding surface; other site 398577005122 active site 398577005123 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 398577005124 Response regulator receiver domain; Region: Response_reg; pfam00072 398577005125 active site 398577005126 phosphorylation site [posttranslational modification] 398577005127 intermolecular recognition site; other site 398577005128 dimerization interface [polypeptide binding]; other site 398577005129 PAS fold; Region: PAS_3; pfam08447 398577005130 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577005131 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577005132 metal binding site [ion binding]; metal-binding site 398577005133 active site 398577005134 I-site; other site 398577005135 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 398577005136 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 398577005137 Response regulator receiver domain; Region: Response_reg; pfam00072 398577005138 active site 398577005139 phosphorylation site [posttranslational modification] 398577005140 intermolecular recognition site; other site 398577005141 dimerization interface [polypeptide binding]; other site 398577005142 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 398577005143 glycerate dehydrogenase; Provisional; Region: PRK06487 398577005144 putative ligand binding site [chemical binding]; other site 398577005145 putative NAD binding site [chemical binding]; other site 398577005146 catalytic site [active] 398577005147 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577005148 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577005149 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398577005150 active site 398577005151 catalytic residues [active] 398577005152 metal binding site [ion binding]; metal-binding site 398577005153 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 398577005154 dimer interface [polypeptide binding]; other site 398577005155 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577005156 metal binding site [ion binding]; metal-binding site 398577005157 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398577005158 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577005159 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577005160 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 398577005161 putative dimerization interface [polypeptide binding]; other site 398577005162 benzoate transport; Region: 2A0115; TIGR00895 398577005163 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577005164 putative substrate translocation pore; other site 398577005165 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577005166 putative substrate translocation pore; other site 398577005167 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398577005168 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 398577005169 FMN binding site [chemical binding]; other site 398577005170 substrate binding site [chemical binding]; other site 398577005171 putative catalytic residue [active] 398577005172 Uncharacterized conserved protein [Function unknown]; Region: COG3791 398577005173 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577005174 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 398577005175 putative Zn2+ binding site [ion binding]; other site 398577005176 putative DNA binding site [nucleotide binding]; other site 398577005177 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577005178 Coenzyme A binding pocket [chemical binding]; other site 398577005179 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577005180 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 398577005181 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 398577005182 homotrimer interaction site [polypeptide binding]; other site 398577005183 putative active site [active] 398577005184 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577005185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577005186 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 398577005187 putative effector binding pocket; other site 398577005188 dimerization interface [polypeptide binding]; other site 398577005189 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 398577005190 classical (c) SDRs; Region: SDR_c; cd05233 398577005191 NAD(P) binding site [chemical binding]; other site 398577005192 active site 398577005193 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 398577005194 shikimate kinase II; Reviewed; Region: aroL; cl17327 398577005195 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 398577005196 putative deacylase active site [active] 398577005197 YciI-like protein; Reviewed; Region: PRK12866 398577005198 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 398577005199 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 398577005200 oligomer interface [polypeptide binding]; other site 398577005201 metal binding site [ion binding]; metal-binding site 398577005202 metal binding site [ion binding]; metal-binding site 398577005203 putative Cl binding site [ion binding]; other site 398577005204 basic sphincter; other site 398577005205 hydrophobic gate; other site 398577005206 periplasmic entrance; other site 398577005207 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 398577005208 AAA domain; Region: AAA_33; pfam13671 398577005209 RNA helicase; Region: RNA_helicase; pfam00910 398577005210 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 398577005211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577005212 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577005213 AsnC family; Region: AsnC_trans_reg; pfam01037 398577005214 LTXXQ motif family protein; Region: LTXXQ; pfam07813 398577005215 PGDYG protein; Region: PGDYG; pfam14083 398577005216 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 398577005217 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 398577005218 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577005219 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577005220 DNA binding site [nucleotide binding] 398577005221 domain linker motif; other site 398577005222 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 398577005223 putative ligand binding site [chemical binding]; other site 398577005224 putative dimerization interface [polypeptide binding]; other site 398577005225 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577005226 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 398577005227 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 398577005228 dimerization interface [polypeptide binding]; other site 398577005229 ligand binding site [chemical binding]; other site 398577005230 NADP binding site [chemical binding]; other site 398577005231 catalytic site [active] 398577005232 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577005233 D-galactonate transporter; Region: 2A0114; TIGR00893 398577005234 putative substrate translocation pore; other site 398577005235 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577005236 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 398577005237 substrate binding site [chemical binding]; other site 398577005238 ATP binding site [chemical binding]; other site 398577005239 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 398577005240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577005241 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 398577005242 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 398577005243 putative dimerization interface [polypeptide binding]; other site 398577005244 Predicted membrane protein [Function unknown]; Region: COG2855 398577005245 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 398577005246 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 398577005247 Cl- selectivity filter; other site 398577005248 Cl- binding residues [ion binding]; other site 398577005249 pore gating glutamate residue; other site 398577005250 dimer interface [polypeptide binding]; other site 398577005251 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 398577005252 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577005253 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577005254 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577005255 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577005256 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398577005257 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577005258 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 398577005259 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398577005260 DNA binding residues [nucleotide binding] 398577005261 putative dimer interface [polypeptide binding]; other site 398577005262 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 398577005263 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 398577005264 PAS fold; Region: PAS_4; pfam08448 398577005265 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 398577005266 putative active site [active] 398577005267 heme pocket [chemical binding]; other site 398577005268 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 398577005269 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398577005270 Walker A motif; other site 398577005271 ATP binding site [chemical binding]; other site 398577005272 Walker B motif; other site 398577005273 arginine finger; other site 398577005274 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398577005275 Putative phosphatase (DUF442); Region: DUF442; cl17385 398577005276 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 398577005277 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398577005278 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398577005279 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 398577005280 dimer interface [polypeptide binding]; other site 398577005281 conserved gate region; other site 398577005282 putative PBP binding loops; other site 398577005283 ABC-ATPase subunit interface; other site 398577005284 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 398577005285 dimer interface [polypeptide binding]; other site 398577005286 conserved gate region; other site 398577005287 putative PBP binding loops; other site 398577005288 ABC-ATPase subunit interface; other site 398577005289 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 398577005290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577005291 Walker A/P-loop; other site 398577005292 ATP binding site [chemical binding]; other site 398577005293 Q-loop/lid; other site 398577005294 ABC transporter signature motif; other site 398577005295 Walker B; other site 398577005296 D-loop; other site 398577005297 H-loop/switch region; other site 398577005298 TOBE domain; Region: TOBE_2; pfam08402 398577005299 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 398577005300 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398577005301 Predicted Fe-S protein [General function prediction only]; Region: COG3313 398577005302 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 398577005303 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398577005304 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 398577005305 FMN binding site [chemical binding]; other site 398577005306 substrate binding site [chemical binding]; other site 398577005307 putative catalytic residue [active] 398577005308 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398577005309 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577005310 NAD binding site [chemical binding]; other site 398577005311 catalytic residues [active] 398577005312 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577005313 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 398577005314 putative DNA binding site [nucleotide binding]; other site 398577005315 putative Zn2+ binding site [ion binding]; other site 398577005316 AsnC family; Region: AsnC_trans_reg; pfam01037 398577005317 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398577005318 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 398577005319 putative NAD(P) binding site [chemical binding]; other site 398577005320 catalytic Zn binding site [ion binding]; other site 398577005321 structural Zn binding site [ion binding]; other site 398577005322 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 398577005323 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398577005324 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398577005325 ABC transporter; Region: ABC_tran_2; pfam12848 398577005326 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398577005327 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 398577005328 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 398577005329 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 398577005330 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 398577005331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577005332 Walker A/P-loop; other site 398577005333 ATP binding site [chemical binding]; other site 398577005334 Q-loop/lid; other site 398577005335 ABC transporter signature motif; other site 398577005336 Walker B; other site 398577005337 D-loop; other site 398577005338 H-loop/switch region; other site 398577005339 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 398577005340 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 398577005341 dimer interface [polypeptide binding]; other site 398577005342 putative inhibitory loop; other site 398577005343 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 398577005344 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 398577005345 putative NAD(P) binding site [chemical binding]; other site 398577005346 dimer interface [polypeptide binding]; other site 398577005347 transcriptional activator TtdR; Provisional; Region: PRK09801 398577005348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577005349 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 398577005350 putative effector binding pocket; other site 398577005351 dimerization interface [polypeptide binding]; other site 398577005352 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 398577005353 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 398577005354 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 398577005355 motif II; other site 398577005356 cystathionine beta-lyase; Provisional; Region: PRK07050 398577005357 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 398577005358 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577005359 catalytic residue [active] 398577005360 beta-ketothiolase; Provisional; Region: PRK09051 398577005361 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 398577005362 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577005363 substrate binding site [chemical binding]; other site 398577005364 ATP binding site [chemical binding]; other site 398577005365 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 398577005366 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398577005367 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 398577005368 FeS/SAM binding site; other site 398577005369 TRAM domain; Region: TRAM; cl01282 398577005370 BNR repeat-like domain; Region: BNR_2; pfam13088 398577005371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 398577005372 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 398577005373 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 398577005374 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 398577005375 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398577005376 NAD(P) binding site [chemical binding]; other site 398577005377 homotetramer interface [polypeptide binding]; other site 398577005378 homodimer interface [polypeptide binding]; other site 398577005379 active site 398577005380 putative acyltransferase; Provisional; Region: PRK05790 398577005381 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 398577005382 dimer interface [polypeptide binding]; other site 398577005383 active site 398577005384 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 398577005385 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 398577005386 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 398577005387 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 398577005388 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 398577005389 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 398577005390 RNA binding surface [nucleotide binding]; other site 398577005391 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 398577005392 active site 398577005393 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 398577005394 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 398577005395 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 398577005396 DEAD_2; Region: DEAD_2; pfam06733 398577005397 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398577005398 Protein of unknown function (DUF465); Region: DUF465; cl01070 398577005399 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 398577005400 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 398577005401 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 398577005402 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 398577005403 RNA binding site [nucleotide binding]; other site 398577005404 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 398577005405 potassium uptake protein; Region: kup; TIGR00794 398577005406 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 398577005407 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398577005408 active site 398577005409 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 398577005410 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 398577005411 GDP-binding site [chemical binding]; other site 398577005412 ACT binding site; other site 398577005413 IMP binding site; other site 398577005414 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 398577005415 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 398577005416 dimer interface [polypeptide binding]; other site 398577005417 motif 1; other site 398577005418 active site 398577005419 motif 2; other site 398577005420 motif 3; other site 398577005421 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 398577005422 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398577005423 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 398577005424 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 398577005425 HflK protein; Region: hflK; TIGR01933 398577005426 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 398577005427 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 398577005428 HflX GTPase family; Region: HflX; cd01878 398577005429 G1 box; other site 398577005430 GTP/Mg2+ binding site [chemical binding]; other site 398577005431 Switch I region; other site 398577005432 G2 box; other site 398577005433 G3 box; other site 398577005434 Switch II region; other site 398577005435 G4 box; other site 398577005436 G5 box; other site 398577005437 bacterial Hfq-like; Region: Hfq; cd01716 398577005438 hexamer interface [polypeptide binding]; other site 398577005439 Sm1 motif; other site 398577005440 RNA binding site [nucleotide binding]; other site 398577005441 Sm2 motif; other site 398577005442 GTP-binding protein Der; Reviewed; Region: PRK00093 398577005443 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 398577005444 G1 box; other site 398577005445 GTP/Mg2+ binding site [chemical binding]; other site 398577005446 Switch I region; other site 398577005447 G2 box; other site 398577005448 Switch II region; other site 398577005449 G3 box; other site 398577005450 G4 box; other site 398577005451 G5 box; other site 398577005452 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 398577005453 G1 box; other site 398577005454 GTP/Mg2+ binding site [chemical binding]; other site 398577005455 Switch I region; other site 398577005456 G2 box; other site 398577005457 G3 box; other site 398577005458 Switch II region; other site 398577005459 G4 box; other site 398577005460 G5 box; other site 398577005461 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 398577005462 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 398577005463 Trp docking motif [polypeptide binding]; other site 398577005464 active site 398577005465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 398577005466 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 398577005467 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 398577005468 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 398577005469 dimer interface [polypeptide binding]; other site 398577005470 motif 1; other site 398577005471 active site 398577005472 motif 2; other site 398577005473 motif 3; other site 398577005474 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 398577005475 anticodon binding site; other site 398577005476 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 398577005477 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398577005478 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 398577005479 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 398577005480 non-specific DNA binding site [nucleotide binding]; other site 398577005481 salt bridge; other site 398577005482 sequence-specific DNA binding site [nucleotide binding]; other site 398577005483 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 398577005484 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 398577005485 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 398577005486 FeS/SAM binding site; other site 398577005487 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 398577005488 active site 398577005489 multimer interface [polypeptide binding]; other site 398577005490 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 398577005491 YccA-like proteins; Region: YccA_like; cd10433 398577005492 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 398577005493 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 398577005494 S-adenosylmethionine binding site [chemical binding]; other site 398577005495 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 398577005496 putative catalytic site [active] 398577005497 putative metal binding site [ion binding]; other site 398577005498 putative phosphate binding site [ion binding]; other site 398577005499 putative catalytic site [active] 398577005500 putative phosphate binding site [ion binding]; other site 398577005501 putative metal binding site [ion binding]; other site 398577005502 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 398577005503 active site 398577005504 catalytic site [active] 398577005505 substrate binding site [chemical binding]; other site 398577005506 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 398577005507 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 398577005508 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398577005509 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577005510 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 398577005511 DNA binding residues [nucleotide binding] 398577005512 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577005513 Peptidase family M23; Region: Peptidase_M23; pfam01551 398577005514 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 398577005515 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 398577005516 S-adenosylmethionine binding site [chemical binding]; other site 398577005517 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 398577005518 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577005519 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577005520 recombination protein RecR; Reviewed; Region: recR; PRK00076 398577005521 RecR protein; Region: RecR; pfam02132 398577005522 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 398577005523 putative active site [active] 398577005524 putative metal-binding site [ion binding]; other site 398577005525 tetramer interface [polypeptide binding]; other site 398577005526 hypothetical protein; Validated; Region: PRK00153 398577005527 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 398577005528 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 398577005529 Walker A motif; other site 398577005530 ATP binding site [chemical binding]; other site 398577005531 Walker B motif; other site 398577005532 arginine finger; other site 398577005533 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 398577005534 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 398577005535 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577005536 catalytic residues [active] 398577005537 transcription termination factor Rho; Provisional; Region: rho; PRK09376 398577005538 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 398577005539 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 398577005540 RNA binding site [nucleotide binding]; other site 398577005541 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 398577005542 multimer interface [polypeptide binding]; other site 398577005543 Walker A motif; other site 398577005544 ATP binding site [chemical binding]; other site 398577005545 Walker B motif; other site 398577005546 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398577005547 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398577005548 DNA binding residues [nucleotide binding] 398577005549 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577005550 putative substrate translocation pore; other site 398577005551 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577005552 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 398577005553 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 398577005554 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 398577005555 multidrug efflux protein; Reviewed; Region: PRK01766 398577005556 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 398577005557 cation binding site [ion binding]; other site 398577005558 lipoyl synthase; Provisional; Region: PRK12928 398577005559 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 398577005560 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 398577005561 E3 interaction surface; other site 398577005562 lipoyl attachment site [posttranslational modification]; other site 398577005563 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 398577005564 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 398577005565 alpha subunit interface [polypeptide binding]; other site 398577005566 TPP binding site [chemical binding]; other site 398577005567 heterodimer interface [polypeptide binding]; other site 398577005568 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398577005569 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 398577005570 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 398577005571 tetramer interface [polypeptide binding]; other site 398577005572 TPP-binding site [chemical binding]; other site 398577005573 heterodimer interface [polypeptide binding]; other site 398577005574 phosphorylation loop region [posttranslational modification] 398577005575 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 398577005576 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 398577005577 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 398577005578 Walker A motif; other site 398577005579 ATP binding site [chemical binding]; other site 398577005580 Walker B motif; other site 398577005581 arginine finger; other site 398577005582 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577005583 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 398577005584 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 398577005585 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398577005586 DNA binding residues [nucleotide binding] 398577005587 putative dimer interface [polypeptide binding]; other site 398577005588 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 398577005589 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 398577005590 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 398577005591 Clp amino terminal domain; Region: Clp_N; pfam02861 398577005592 Clp amino terminal domain; Region: Clp_N; pfam02861 398577005593 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 398577005594 Walker A motif; other site 398577005595 ATP binding site [chemical binding]; other site 398577005596 Walker B motif; other site 398577005597 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 398577005598 arginine finger; other site 398577005599 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 398577005600 Walker A motif; other site 398577005601 ATP binding site [chemical binding]; other site 398577005602 Walker B motif; other site 398577005603 arginine finger; other site 398577005604 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 398577005605 Transcriptional regulator; Region: Rrf2; cl17282 398577005606 Rrf2 family protein; Region: rrf2_super; TIGR00738 398577005607 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 398577005608 apolar tunnel; other site 398577005609 heme binding site [chemical binding]; other site 398577005610 dimerization interface [polypeptide binding]; other site 398577005611 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 398577005612 MoaE homodimer interface [polypeptide binding]; other site 398577005613 MoaD interaction [polypeptide binding]; other site 398577005614 active site residues [active] 398577005615 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 398577005616 MoaE interaction surface [polypeptide binding]; other site 398577005617 MoeB interaction surface [polypeptide binding]; other site 398577005618 thiocarboxylated glycine; other site 398577005619 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 398577005620 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398577005621 dimer interface [polypeptide binding]; other site 398577005622 putative functional site; other site 398577005623 putative MPT binding site; other site 398577005624 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 398577005625 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 398577005626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577005627 catalytic residue [active] 398577005628 homoserine dehydrogenase; Provisional; Region: PRK06349 398577005629 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 398577005630 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398577005631 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 398577005632 aminotransferase AlaT; Validated; Region: PRK09265 398577005633 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 398577005634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577005635 homodimer interface [polypeptide binding]; other site 398577005636 catalytic residue [active] 398577005637 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 398577005638 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 398577005639 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 398577005640 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 398577005641 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 398577005642 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 398577005643 inhibitor-cofactor binding pocket; inhibition site 398577005644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577005645 catalytic residue [active] 398577005646 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 398577005647 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 398577005648 Ligand binding site; other site 398577005649 Putative Catalytic site; other site 398577005650 DXD motif; other site 398577005651 putative formyltransferase; Provisional; Region: PRK06988 398577005652 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 398577005653 active site 398577005654 substrate binding site [chemical binding]; other site 398577005655 cosubstrate binding site; other site 398577005656 catalytic site [active] 398577005657 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 398577005658 active site 398577005659 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 398577005660 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 398577005661 NAD binding site [chemical binding]; other site 398577005662 substrate binding site [chemical binding]; other site 398577005663 active site 398577005664 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 398577005665 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 398577005666 putative active site [active] 398577005667 putative catalytic site [active] 398577005668 putative Zn binding site [ion binding]; other site 398577005669 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 398577005670 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577005671 catalytic triad [active] 398577005672 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 398577005673 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 398577005674 putative active site [active] 398577005675 PhoH-like protein; Region: PhoH; pfam02562 398577005676 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 398577005677 NlpC/P60 family; Region: NLPC_P60; pfam00877 398577005678 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 398577005679 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 398577005680 replicative DNA helicase; Provisional; Region: PRK07004 398577005681 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 398577005682 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 398577005683 Walker A motif; other site 398577005684 ATP binding site [chemical binding]; other site 398577005685 Walker B motif; other site 398577005686 DNA binding loops [nucleotide binding] 398577005687 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 398577005688 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 398577005689 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 398577005690 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 398577005691 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 398577005692 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 398577005693 Putative zinc-finger; Region: zf-HC2; pfam13490 398577005694 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 398577005695 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577005696 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 398577005697 DNA binding residues [nucleotide binding] 398577005698 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577005699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577005700 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 398577005701 putative effector binding pocket; other site 398577005702 dimerization interface [polypeptide binding]; other site 398577005703 glyoxylate carboligase; Provisional; Region: PRK11269 398577005704 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398577005705 PYR/PP interface [polypeptide binding]; other site 398577005706 dimer interface [polypeptide binding]; other site 398577005707 TPP binding site [chemical binding]; other site 398577005708 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398577005709 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 398577005710 TPP-binding site [chemical binding]; other site 398577005711 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 398577005712 tartronate semialdehyde reductase; Provisional; Region: PRK15059 398577005713 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398577005714 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 398577005715 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577005716 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 398577005717 active site 398577005718 homodimer interface [polypeptide binding]; other site 398577005719 homotetramer interface [polypeptide binding]; other site 398577005720 psiF repeat; Region: PsiF_repeat; pfam07769 398577005721 psiF repeat; Region: PsiF_repeat; pfam07769 398577005722 Domain of unknown function DUF221; Region: DUF221; pfam02714 398577005723 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 398577005724 putative amphipathic alpha helix; other site 398577005725 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 398577005726 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577005727 putative ADP-binding pocket [chemical binding]; other site 398577005728 Predicted ATPase [General function prediction only]; Region: COG4637 398577005729 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577005730 Walker A/P-loop; other site 398577005731 ATP binding site [chemical binding]; other site 398577005732 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398577005733 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398577005734 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398577005735 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 398577005736 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 398577005737 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398577005738 active site 398577005739 DNA polymerase III subunit delta'; Validated; Region: PRK06964 398577005740 DNA polymerase III subunit delta'; Validated; Region: PRK08485 398577005741 thymidylate kinase; Validated; Region: tmk; PRK00698 398577005742 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 398577005743 TMP-binding site; other site 398577005744 ATP-binding site [chemical binding]; other site 398577005745 YceG-like family; Region: YceG; pfam02618 398577005746 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 398577005747 dimerization interface [polypeptide binding]; other site 398577005748 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 398577005749 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 398577005750 NRDE protein; Region: NRDE; cl01315 398577005751 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398577005752 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577005753 Coenzyme A binding pocket [chemical binding]; other site 398577005754 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 398577005755 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398577005756 substrate binding pocket [chemical binding]; other site 398577005757 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 398577005758 Prostaglandin dehydrogenases; Region: PGDH; cd05288 398577005759 NAD(P) binding site [chemical binding]; other site 398577005760 substrate binding site [chemical binding]; other site 398577005761 dimer interface [polypeptide binding]; other site 398577005762 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 398577005763 CoenzymeA binding site [chemical binding]; other site 398577005764 subunit interaction site [polypeptide binding]; other site 398577005765 PHB binding site; other site 398577005766 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 398577005767 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 398577005768 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398577005769 MULE transposase domain; Region: MULE; pfam10551 398577005770 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 398577005771 active site 398577005772 Int/Topo IB signature motif; other site 398577005773 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 398577005774 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 398577005775 Predicted transcriptional regulators [Transcription]; Region: COG1733 398577005776 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 398577005777 dimerization interface [polypeptide binding]; other site 398577005778 putative DNA binding site [nucleotide binding]; other site 398577005779 putative Zn2+ binding site [ion binding]; other site 398577005780 Isochorismatase family; Region: Isochorismatase; pfam00857 398577005781 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 398577005782 catalytic triad [active] 398577005783 dimer interface [polypeptide binding]; other site 398577005784 conserved cis-peptide bond; other site 398577005785 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577005786 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577005787 metal binding site [ion binding]; metal-binding site 398577005788 active site 398577005789 I-site; other site 398577005790 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 398577005791 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 398577005792 dimer interface [polypeptide binding]; other site 398577005793 active site 398577005794 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 398577005795 Isochorismatase family; Region: Isochorismatase; pfam00857 398577005796 catalytic triad [active] 398577005797 metal binding site [ion binding]; metal-binding site 398577005798 conserved cis-peptide bond; other site 398577005799 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 398577005800 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 398577005801 substrate binding site [chemical binding]; other site 398577005802 oxyanion hole (OAH) forming residues; other site 398577005803 trimer interface [polypeptide binding]; other site 398577005804 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398577005805 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577005806 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577005807 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 398577005808 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 398577005809 dimer interface [polypeptide binding]; other site 398577005810 acyl-activating enzyme (AAE) consensus motif; other site 398577005811 putative active site [active] 398577005812 AMP binding site [chemical binding]; other site 398577005813 putative CoA binding site [chemical binding]; other site 398577005814 Uncharacterized conserved protein [Function unknown]; Region: COG0397 398577005815 hypothetical protein; Validated; Region: PRK00029 398577005816 methionine sulfoxide reductase B; Provisional; Region: PRK00222 398577005817 SelR domain; Region: SelR; pfam01641 398577005818 intracellular septation protein A; Reviewed; Region: PRK00259 398577005819 BolA-like protein; Region: BolA; pfam01722 398577005820 SurA N-terminal domain; Region: SurA_N_3; cl07813 398577005821 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398577005822 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577005823 Coenzyme A binding pocket [chemical binding]; other site 398577005824 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 398577005825 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 398577005826 dimerization interface [polypeptide binding]; other site 398577005827 ATP binding site [chemical binding]; other site 398577005828 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 398577005829 dimerization interface [polypeptide binding]; other site 398577005830 ATP binding site [chemical binding]; other site 398577005831 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 398577005832 putative active site [active] 398577005833 catalytic triad [active] 398577005834 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398577005835 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577005836 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 398577005837 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 398577005838 putative substrate binding site [chemical binding]; other site 398577005839 putative ATP binding site [chemical binding]; other site 398577005840 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 398577005841 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 398577005842 active site 398577005843 dimer interface [polypeptide binding]; other site 398577005844 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 398577005845 dimer interface [polypeptide binding]; other site 398577005846 active site 398577005847 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 398577005848 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398577005849 Walker A/P-loop; other site 398577005850 ATP binding site [chemical binding]; other site 398577005851 Q-loop/lid; other site 398577005852 ABC transporter signature motif; other site 398577005853 Walker B; other site 398577005854 D-loop; other site 398577005855 H-loop/switch region; other site 398577005856 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 398577005857 active site 398577005858 catalytic triad [active] 398577005859 oxyanion hole [active] 398577005860 switch loop; other site 398577005861 SurA N-terminal domain; Region: SurA_N_3; cl07813 398577005862 periplasmic folding chaperone; Provisional; Region: PRK10788 398577005863 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398577005864 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 398577005865 Found in ATP-dependent protease La (LON); Region: LON; smart00464 398577005866 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 398577005867 Walker A motif; other site 398577005868 ATP binding site [chemical binding]; other site 398577005869 Walker B motif; other site 398577005870 arginine finger; other site 398577005871 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 398577005872 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 398577005873 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 398577005874 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 398577005875 Walker A motif; other site 398577005876 ATP binding site [chemical binding]; other site 398577005877 Walker B motif; other site 398577005878 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398577005879 Clp protease; Region: CLP_protease; pfam00574 398577005880 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 398577005881 oligomer interface [polypeptide binding]; other site 398577005882 active site residues [active] 398577005883 trigger factor; Provisional; Region: tig; PRK01490 398577005884 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398577005885 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 398577005886 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 398577005887 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577005888 MarR family; Region: MarR_2; pfam12802 398577005889 MarR family; Region: MarR_2; cl17246 398577005890 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398577005891 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398577005892 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398577005893 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398577005894 active site lid residues [active] 398577005895 substrate binding pocket [chemical binding]; other site 398577005896 catalytic residues [active] 398577005897 substrate-Mg2+ binding site; other site 398577005898 aspartate-rich region 1; other site 398577005899 aspartate-rich region 2; other site 398577005900 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 398577005901 YfhG lipoprotein; Region: Lipoprotein_20; cl08141 398577005902 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 398577005903 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398577005904 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 398577005905 active site 398577005906 phosphorylation site [posttranslational modification] 398577005907 intermolecular recognition site; other site 398577005908 dimerization interface [polypeptide binding]; other site 398577005909 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 398577005910 DNA binding site [nucleotide binding] 398577005911 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 398577005912 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 398577005913 dimer interface [polypeptide binding]; other site 398577005914 phosphorylation site [posttranslational modification] 398577005915 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 398577005916 ATP binding site [chemical binding]; other site 398577005917 Mg2+ binding site [ion binding]; other site 398577005918 G-X-G motif; other site 398577005919 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 398577005920 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 398577005921 dimer interface [polypeptide binding]; other site 398577005922 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398577005923 catalytic triad [active] 398577005924 peroxidatic and resolving cysteines [active] 398577005925 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 398577005926 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398577005927 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 398577005928 homotrimer interaction site [polypeptide binding]; other site 398577005929 zinc binding site [ion binding]; other site 398577005930 CDP-binding sites; other site 398577005931 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 398577005932 substrate binding site; other site 398577005933 dimer interface; other site 398577005934 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 398577005935 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 398577005936 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 398577005937 ATP binding site [chemical binding]; other site 398577005938 putative Mg++ binding site [ion binding]; other site 398577005939 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 398577005940 nucleotide binding region [chemical binding]; other site 398577005941 ATP-binding site [chemical binding]; other site 398577005942 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 398577005943 acetylornithine deacetylase; Provisional; Region: PRK07522 398577005944 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 398577005945 metal binding site [ion binding]; metal-binding site 398577005946 putative dimer interface [polypeptide binding]; other site 398577005947 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 398577005948 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 398577005949 tetramer interface [polypeptide binding]; other site 398577005950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577005951 catalytic residue [active] 398577005952 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 398577005953 Transglycosylase; Region: Transgly; pfam00912 398577005954 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398577005955 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 398577005956 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398577005957 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 398577005958 TPR motif; other site 398577005959 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 398577005960 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 398577005961 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398577005962 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 398577005963 Dodecin; Region: Dodecin; pfam07311 398577005964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577005965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577005966 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 398577005967 putative substrate binding pocket [chemical binding]; other site 398577005968 putative dimerization interface [polypeptide binding]; other site 398577005969 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 398577005970 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 398577005971 active site 398577005972 putative substrate binding pocket [chemical binding]; other site 398577005973 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 398577005974 active site 398577005975 homotetramer interface [polypeptide binding]; other site 398577005976 Predicted membrane protein [Function unknown]; Region: COG3748 398577005977 Protein of unknown function (DUF989); Region: DUF989; pfam06181 398577005978 Cytochrome c; Region: Cytochrom_C; pfam00034 398577005979 ACT domain; Region: ACT_3; pfam10000 398577005980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 398577005981 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 398577005982 ureidoglycolate hydrolase; Provisional; Region: PRK03606 398577005983 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 398577005984 allantoicase; Provisional; Region: PRK13257 398577005985 Allantoicase repeat; Region: Allantoicase; pfam03561 398577005986 Allantoicase repeat; Region: Allantoicase; pfam03561 398577005987 OHCU decarboxylase; Region: UHCUDC; TIGR03164 398577005988 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 398577005989 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 398577005990 active site 398577005991 catalytic site [active] 398577005992 tetramer interface [polypeptide binding]; other site 398577005993 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 398577005994 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 398577005995 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398577005996 Na binding site [ion binding]; other site 398577005997 putative substrate binding site [chemical binding]; other site 398577005998 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398577005999 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577006000 DNA-binding site [nucleotide binding]; DNA binding site 398577006001 FCD domain; Region: FCD; pfam07729 398577006002 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 398577006003 dimer interface [polypeptide binding]; other site 398577006004 catalytic triad [active] 398577006005 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 398577006006 nucleoside/Zn binding site; other site 398577006007 dimer interface [polypeptide binding]; other site 398577006008 catalytic motif [active] 398577006009 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 398577006010 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577006011 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577006012 putative substrate translocation pore; other site 398577006013 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398577006014 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577006015 DNA-binding site [nucleotide binding]; DNA binding site 398577006016 UTRA domain; Region: UTRA; pfam07702 398577006017 putative oxidoreductase; Provisional; Region: PRK08275 398577006018 L-aspartate oxidase; Provisional; Region: PRK06175 398577006019 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398577006020 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 398577006021 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398577006022 HEAT repeats; Region: HEAT_2; pfam13646 398577006023 HEAT repeats; Region: HEAT_2; pfam13646 398577006024 Protein of unknown function (DUF971); Region: DUF971; pfam06155 398577006025 GMP synthase; Reviewed; Region: guaA; PRK00074 398577006026 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 398577006027 AMP/PPi binding site [chemical binding]; other site 398577006028 candidate oxyanion hole; other site 398577006029 catalytic triad [active] 398577006030 potential glutamine specificity residues [chemical binding]; other site 398577006031 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 398577006032 ATP Binding subdomain [chemical binding]; other site 398577006033 Ligand Binding sites [chemical binding]; other site 398577006034 Dimerization subdomain; other site 398577006035 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 398577006036 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 398577006037 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 398577006038 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 398577006039 active site 398577006040 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 398577006041 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 398577006042 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 398577006043 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 398577006044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 398577006045 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 398577006046 putative coenzyme Q binding site [chemical binding]; other site 398577006047 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 398577006048 SmpB-tmRNA interface; other site 398577006049 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398577006050 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 398577006051 phosphoenolpyruvate synthase; Validated; Region: PRK06464 398577006052 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 398577006053 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398577006054 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398577006055 PEP synthetase regulatory protein; Provisional; Region: PRK05339 398577006056 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 398577006057 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 398577006058 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 398577006059 RNA/DNA hybrid binding site [nucleotide binding]; other site 398577006060 active site 398577006061 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 398577006062 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 398577006063 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 398577006064 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 398577006065 active site 398577006066 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 398577006067 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 398577006068 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 398577006069 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 398577006070 trimer interface [polypeptide binding]; other site 398577006071 active site 398577006072 UDP-GlcNAc binding site [chemical binding]; other site 398577006073 lipid binding site [chemical binding]; lipid-binding site 398577006074 periplasmic chaperone; Provisional; Region: PRK10780 398577006075 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 398577006076 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 398577006077 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398577006078 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398577006079 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398577006080 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398577006081 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398577006082 Surface antigen; Region: Bac_surface_Ag; pfam01103 398577006083 zinc metallopeptidase RseP; Provisional; Region: PRK10779 398577006084 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 398577006085 active site 398577006086 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 398577006087 protein binding site [polypeptide binding]; other site 398577006088 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 398577006089 putative substrate binding region [chemical binding]; other site 398577006090 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 398577006091 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 398577006092 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 398577006093 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 398577006094 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 398577006095 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 398577006096 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 398577006097 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 398577006098 catalytic residue [active] 398577006099 putative FPP diphosphate binding site; other site 398577006100 putative FPP binding hydrophobic cleft; other site 398577006101 dimer interface [polypeptide binding]; other site 398577006102 putative IPP diphosphate binding site; other site 398577006103 ribosome recycling factor; Reviewed; Region: frr; PRK00083 398577006104 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 398577006105 hinge region; other site 398577006106 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 398577006107 putative nucleotide binding site [chemical binding]; other site 398577006108 uridine monophosphate binding site [chemical binding]; other site 398577006109 homohexameric interface [polypeptide binding]; other site 398577006110 elongation factor Ts; Provisional; Region: tsf; PRK09377 398577006111 UBA/TS-N domain; Region: UBA; pfam00627 398577006112 Elongation factor TS; Region: EF_TS; pfam00889 398577006113 Elongation factor TS; Region: EF_TS; pfam00889 398577006114 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 398577006115 rRNA interaction site [nucleotide binding]; other site 398577006116 S8 interaction site; other site 398577006117 putative laminin-1 binding site; other site 398577006118 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 398577006119 active site 398577006120 PII uridylyl-transferase; Provisional; Region: PRK03059 398577006121 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 398577006122 metal binding triad; other site 398577006123 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 398577006124 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398577006125 Zn2+ binding site [ion binding]; other site 398577006126 Mg2+ binding site [ion binding]; other site 398577006127 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 398577006128 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 398577006129 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398577006130 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 398577006131 RNA binding surface [nucleotide binding]; other site 398577006132 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398577006133 active site 398577006134 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 398577006135 active site 398577006136 catalytic residues [active] 398577006137 metal binding site [ion binding]; metal-binding site 398577006138 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 398577006139 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 398577006140 nucleotide binding pocket [chemical binding]; other site 398577006141 K-X-D-G motif; other site 398577006142 catalytic site [active] 398577006143 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 398577006144 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 398577006145 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 398577006146 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 398577006147 Dimer interface [polypeptide binding]; other site 398577006148 BRCT sequence motif; other site 398577006149 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 398577006150 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 398577006151 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398577006152 Walker A/P-loop; other site 398577006153 ATP binding site [chemical binding]; other site 398577006154 Q-loop/lid; other site 398577006155 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 398577006156 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 398577006157 Q-loop/lid; other site 398577006158 ABC transporter signature motif; other site 398577006159 Walker B; other site 398577006160 D-loop; other site 398577006161 H-loop/switch region; other site 398577006162 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398577006163 EamA-like transporter family; Region: EamA; pfam00892 398577006164 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 398577006165 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 398577006166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577006167 homodimer interface [polypeptide binding]; other site 398577006168 catalytic residue [active] 398577006169 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 398577006170 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 398577006171 trimer interface [polypeptide binding]; other site 398577006172 active site 398577006173 substrate binding site [chemical binding]; other site 398577006174 CoA binding site [chemical binding]; other site 398577006175 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 398577006176 ArsC family; Region: ArsC; pfam03960 398577006177 putative catalytic residues [active] 398577006178 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 398577006179 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 398577006180 metal binding site [ion binding]; metal-binding site 398577006181 dimer interface [polypeptide binding]; other site 398577006182 HemK family putative methylases; Region: hemK_fam; TIGR00536 398577006183 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 398577006184 S-adenosylmethionine binding site [chemical binding]; other site 398577006185 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 398577006186 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 398577006187 putative active site [active] 398577006188 catalytic site [active] 398577006189 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 398577006190 putative active site [active] 398577006191 catalytic site [active] 398577006192 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 398577006193 catalytic residues [active] 398577006194 dimer interface [polypeptide binding]; other site 398577006195 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 398577006196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577006197 Walker A/P-loop; other site 398577006198 ATP binding site [chemical binding]; other site 398577006199 Q-loop/lid; other site 398577006200 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398577006201 ABC transporter; Region: ABC_tran_2; pfam12848 398577006202 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398577006203 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 398577006204 DNA repair protein RadA; Provisional; Region: PRK11823 398577006205 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 398577006206 Walker A motif/ATP binding site; other site 398577006207 ATP binding site [chemical binding]; other site 398577006208 Walker B motif; other site 398577006209 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398577006210 alanine racemase; Reviewed; Region: alr; PRK00053 398577006211 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 398577006212 active site 398577006213 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398577006214 substrate binding site [chemical binding]; other site 398577006215 catalytic residues [active] 398577006216 dimer interface [polypeptide binding]; other site 398577006217 lysophospholipid transporter LplT; Provisional; Region: PRK11195 398577006218 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577006219 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 398577006220 dimer interface [polypeptide binding]; other site 398577006221 substrate binding site [chemical binding]; other site 398577006222 ATP binding site [chemical binding]; other site 398577006223 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 398577006224 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 398577006225 Fe-S cluster binding site [ion binding]; other site 398577006226 active site 398577006227 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 398577006228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577006229 Coenzyme A binding pocket [chemical binding]; other site 398577006230 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 398577006231 Glycoprotease family; Region: Peptidase_M22; pfam00814 398577006232 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 398577006233 acyl-CoA binding pocket [chemical binding]; other site 398577006234 CoA binding site [chemical binding]; other site 398577006235 helicase 45; Provisional; Region: PTZ00424 398577006236 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 398577006237 ATP binding site [chemical binding]; other site 398577006238 Mg++ binding site [ion binding]; other site 398577006239 motif III; other site 398577006240 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 398577006241 nucleotide binding region [chemical binding]; other site 398577006242 ATP-binding site [chemical binding]; other site 398577006243 isocitrate lyase; Provisional; Region: PRK15063 398577006244 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 398577006245 tetramer interface [polypeptide binding]; other site 398577006246 active site 398577006247 Mg2+/Mn2+ binding site [ion binding]; other site 398577006248 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 398577006249 Ligand Binding Site [chemical binding]; other site 398577006250 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577006251 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 398577006252 putative effector binding pocket; other site 398577006253 dimerization interface [polypeptide binding]; other site 398577006254 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398577006255 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 398577006256 motif II; other site 398577006257 malate synthase A; Region: malate_syn_A; TIGR01344 398577006258 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 398577006259 active site 398577006260 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577006261 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577006262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577006263 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577006264 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577006265 Coenzyme A binding pocket [chemical binding]; other site 398577006266 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 398577006267 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398577006268 active site 398577006269 HIGH motif; other site 398577006270 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 398577006271 active site 398577006272 KMSKS motif; other site 398577006273 hypothetical protein; Provisional; Region: PRK10279 398577006274 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 398577006275 nucleophile elbow; other site 398577006276 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 398577006277 NlpC/P60 family; Region: NLPC_P60; pfam00877 398577006278 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 398577006279 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577006280 Walker A/P-loop; other site 398577006281 ATP binding site [chemical binding]; other site 398577006282 Q-loop/lid; other site 398577006283 ABC transporter signature motif; other site 398577006284 Walker B; other site 398577006285 D-loop; other site 398577006286 H-loop/switch region; other site 398577006287 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398577006288 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577006289 Walker A/P-loop; other site 398577006290 ATP binding site [chemical binding]; other site 398577006291 Q-loop/lid; other site 398577006292 ABC transporter signature motif; other site 398577006293 Walker B; other site 398577006294 D-loop; other site 398577006295 H-loop/switch region; other site 398577006296 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398577006297 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 398577006298 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 398577006299 dimer interface [polypeptide binding]; other site 398577006300 conserved gate region; other site 398577006301 putative PBP binding loops; other site 398577006302 ABC-ATPase subunit interface; other site 398577006303 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 398577006304 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 398577006305 dimer interface [polypeptide binding]; other site 398577006306 conserved gate region; other site 398577006307 putative PBP binding loops; other site 398577006308 ABC-ATPase subunit interface; other site 398577006309 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 398577006310 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 398577006311 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398577006312 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577006313 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577006314 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577006315 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577006316 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577006317 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 398577006318 DNA binding site [nucleotide binding] 398577006319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577006320 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 398577006321 dimerization interface [polypeptide binding]; other site 398577006322 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 398577006323 dimer interface [polypeptide binding]; other site 398577006324 phosphorylation site [posttranslational modification] 398577006325 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 398577006326 ATP binding site [chemical binding]; other site 398577006327 Mg2+ binding site [ion binding]; other site 398577006328 G-X-G motif; other site 398577006329 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577006330 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 398577006331 active site 398577006332 phosphorylation site [posttranslational modification] 398577006333 intermolecular recognition site; other site 398577006334 dimerization interface [polypeptide binding]; other site 398577006335 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 398577006336 DNA binding site [nucleotide binding] 398577006337 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577006338 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 398577006339 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 398577006340 Subunit I/III interface [polypeptide binding]; other site 398577006341 Subunit III/IV interface [polypeptide binding]; other site 398577006342 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398577006343 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 398577006344 D-pathway; other site 398577006345 Putative ubiquinol binding site [chemical binding]; other site 398577006346 Low-spin heme (heme b) binding site [chemical binding]; other site 398577006347 Putative water exit pathway; other site 398577006348 Binuclear center (heme o3/CuB) [ion binding]; other site 398577006349 K-pathway; other site 398577006350 Putative proton exit pathway; other site 398577006351 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 398577006352 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 398577006353 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 398577006354 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 398577006355 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398577006356 aspartate kinase; Reviewed; Region: PRK06635 398577006357 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 398577006358 putative nucleotide binding site [chemical binding]; other site 398577006359 putative catalytic residues [active] 398577006360 putative Mg ion binding site [ion binding]; other site 398577006361 putative aspartate binding site [chemical binding]; other site 398577006362 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 398577006363 putative allosteric regulatory site; other site 398577006364 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 398577006365 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 398577006366 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 398577006367 Ligand Binding Site [chemical binding]; other site 398577006368 TilS substrate binding domain; Region: TilS; pfam09179 398577006369 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 398577006370 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 398577006371 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 398577006372 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398577006373 endonuclease III; Region: ENDO3c; smart00478 398577006374 minor groove reading motif; other site 398577006375 helix-hairpin-helix signature motif; other site 398577006376 substrate binding pocket [chemical binding]; other site 398577006377 active site 398577006378 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 398577006379 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398577006380 active site 398577006381 HIGH motif; other site 398577006382 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 398577006383 KMSKS motif; other site 398577006384 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 398577006385 tRNA binding surface [nucleotide binding]; other site 398577006386 anticodon binding site; other site 398577006387 TPR repeat; Region: TPR_11; pfam13414 398577006388 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 398577006389 binding surface 398577006390 TPR motif; other site 398577006391 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 398577006392 substrate binding site [chemical binding]; other site 398577006393 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 398577006394 substrate binding site [chemical binding]; other site 398577006395 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398577006396 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 398577006397 putative active site [active] 398577006398 putative metal binding site [ion binding]; other site 398577006399 serine O-acetyltransferase; Region: cysE; TIGR01172 398577006400 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 398577006401 trimer interface [polypeptide binding]; other site 398577006402 active site 398577006403 substrate binding site [chemical binding]; other site 398577006404 CoA binding site [chemical binding]; other site 398577006405 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 398577006406 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 398577006407 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 398577006408 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 398577006409 active site 398577006410 dimerization interface [polypeptide binding]; other site 398577006411 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 398577006412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577006413 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577006414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577006415 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 398577006416 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 398577006417 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398577006418 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 398577006419 S-adenosylmethionine binding site [chemical binding]; other site 398577006420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577006421 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 398577006422 dimer interface [polypeptide binding]; other site 398577006423 phosphorylation site [posttranslational modification] 398577006424 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 398577006425 ATP binding site [chemical binding]; other site 398577006426 Mg2+ binding site [ion binding]; other site 398577006427 G-X-G motif; other site 398577006428 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 398577006429 MutS domain I; Region: MutS_I; pfam01624 398577006430 MutS domain II; Region: MutS_II; pfam05188 398577006431 MutS domain III; Region: MutS_III; pfam05192 398577006432 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 398577006433 Walker A/P-loop; other site 398577006434 ATP binding site [chemical binding]; other site 398577006435 Q-loop/lid; other site 398577006436 ABC transporter signature motif; other site 398577006437 Walker B; other site 398577006438 D-loop; other site 398577006439 H-loop/switch region; other site 398577006440 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 398577006441 Uncharacterized conserved protein [Function unknown]; Region: COG2850 398577006442 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 398577006443 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 398577006444 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 398577006445 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398577006446 dihydrodipicolinate synthase; Region: dapA; TIGR00674 398577006447 dimer interface [polypeptide binding]; other site 398577006448 active site 398577006449 catalytic residue [active] 398577006450 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 398577006451 active site 398577006452 HIGH motif; other site 398577006453 dimer interface [polypeptide binding]; other site 398577006454 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398577006455 active site 398577006456 KMSKS motif; other site 398577006457 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 398577006458 Peptidase family M50; Region: Peptidase_M50; pfam02163 398577006459 active site 398577006460 putative substrate binding region [chemical binding]; other site 398577006461 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 398577006462 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 398577006463 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 398577006464 active site 398577006465 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 398577006466 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577006467 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577006468 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 398577006469 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398577006470 dinuclear metal binding motif [ion binding]; other site 398577006471 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 398577006472 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 398577006473 trimer interface [polypeptide binding]; other site 398577006474 putative metal binding site [ion binding]; other site 398577006475 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 398577006476 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 398577006477 dimerization interface [polypeptide binding]; other site 398577006478 domain crossover interface; other site 398577006479 redox-dependent activation switch; other site 398577006480 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 398577006481 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 398577006482 enolase; Provisional; Region: eno; PRK00077 398577006483 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 398577006484 dimer interface [polypeptide binding]; other site 398577006485 metal binding site [ion binding]; metal-binding site 398577006486 substrate binding pocket [chemical binding]; other site 398577006487 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 398577006488 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398577006489 CTP synthetase; Validated; Region: pyrG; PRK05380 398577006490 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 398577006491 Catalytic site [active] 398577006492 active site 398577006493 UTP binding site [chemical binding]; other site 398577006494 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 398577006495 active site 398577006496 putative oxyanion hole; other site 398577006497 catalytic triad [active] 398577006498 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577006499 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 398577006500 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 398577006501 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 398577006502 Competence protein; Region: Competence; pfam03772 398577006503 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398577006504 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 398577006505 active site 398577006506 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 398577006507 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 398577006508 Walker A/P-loop; other site 398577006509 ATP binding site [chemical binding]; other site 398577006510 Q-loop/lid; other site 398577006511 ABC transporter signature motif; other site 398577006512 Walker B; other site 398577006513 D-loop; other site 398577006514 H-loop/switch region; other site 398577006515 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 398577006516 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 398577006517 FtsX-like permease family; Region: FtsX; pfam02687 398577006518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 398577006519 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 398577006520 DHH family; Region: DHH; pfam01368 398577006521 DHHA1 domain; Region: DHHA1; pfam02272 398577006522 This domain is found in peptide chain release factors; Region: PCRF; smart00937 398577006523 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 398577006524 RF-1 domain; Region: RF-1; pfam00472 398577006525 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 398577006526 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 398577006527 dimer interface [polypeptide binding]; other site 398577006528 putative anticodon binding site; other site 398577006529 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 398577006530 motif 1; other site 398577006531 active site 398577006532 motif 2; other site 398577006533 motif 3; other site 398577006534 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 398577006535 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 398577006536 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 398577006537 catalytic loop [active] 398577006538 iron binding site [ion binding]; other site 398577006539 chaperone protein HscA; Provisional; Region: hscA; PRK05183 398577006540 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 398577006541 nucleotide binding site [chemical binding]; other site 398577006542 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398577006543 SBD interface [polypeptide binding]; other site 398577006544 co-chaperone HscB; Provisional; Region: hscB; PRK03578 398577006545 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 398577006546 HSP70 interaction site [polypeptide binding]; other site 398577006547 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 398577006548 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 398577006549 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 398577006550 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 398577006551 trimerization site [polypeptide binding]; other site 398577006552 active site 398577006553 cysteine desulfurase; Provisional; Region: PRK14012 398577006554 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398577006555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577006556 catalytic residue [active] 398577006557 Predicted transcriptional regulator [Transcription]; Region: COG1959 398577006558 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 398577006559 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398577006560 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398577006561 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 398577006562 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 398577006563 4Fe-4S binding domain; Region: Fer4; pfam00037 398577006564 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398577006565 Cysteine-rich domain; Region: CCG; pfam02754 398577006566 Cysteine-rich domain; Region: CCG; pfam02754 398577006567 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577006568 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577006569 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577006570 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 398577006571 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398577006572 Phasin protein; Region: Phasin_2; pfam09361 398577006573 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 398577006574 E3 interaction surface; other site 398577006575 lipoyl attachment site [posttranslational modification]; other site 398577006576 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 398577006577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577006578 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398577006579 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 398577006580 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 398577006581 E3 interaction surface; other site 398577006582 lipoyl attachment site [posttranslational modification]; other site 398577006583 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 398577006584 E3 interaction surface; other site 398577006585 lipoyl attachment site [posttranslational modification]; other site 398577006586 e3 binding domain; Region: E3_binding; pfam02817 398577006587 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 398577006588 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 398577006589 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 398577006590 dimer interface [polypeptide binding]; other site 398577006591 TPP-binding site [chemical binding]; other site 398577006592 PAS domain S-box; Region: sensory_box; TIGR00229 398577006593 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 398577006594 putative active site [active] 398577006595 heme pocket [chemical binding]; other site 398577006596 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 398577006597 dimer interface [polypeptide binding]; other site 398577006598 phosphorylation site [posttranslational modification] 398577006599 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 398577006600 ATP binding site [chemical binding]; other site 398577006601 Mg2+ binding site [ion binding]; other site 398577006602 G-X-G motif; other site 398577006603 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398577006604 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 398577006605 active site 398577006606 phosphorylation site [posttranslational modification] 398577006607 intermolecular recognition site; other site 398577006608 dimerization interface [polypeptide binding]; other site 398577006609 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 398577006610 DNA binding residues [nucleotide binding] 398577006611 dimerization interface [polypeptide binding]; other site 398577006612 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 398577006613 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 398577006614 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 398577006615 homodimer interface [polypeptide binding]; other site 398577006616 NADP binding site [chemical binding]; other site 398577006617 substrate binding site [chemical binding]; other site 398577006618 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 398577006619 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 398577006620 active site 398577006621 Zn binding site [ion binding]; other site 398577006622 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 398577006623 active site 398577006624 DNA polymerase IV; Validated; Region: PRK02406 398577006625 DNA binding site [nucleotide binding] 398577006626 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 398577006627 aspartate racemase; Region: asp_race; TIGR00035 398577006628 Domain of unknown function (DUF3472); Region: DUF3472; pfam11958 398577006629 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 398577006630 putative catalytic site [active] 398577006631 putative phosphate binding site [ion binding]; other site 398577006632 active site 398577006633 metal binding site A [ion binding]; metal-binding site 398577006634 DNA binding site [nucleotide binding] 398577006635 putative AP binding site [nucleotide binding]; other site 398577006636 putative metal binding site B [ion binding]; other site 398577006637 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 398577006638 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577006639 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 398577006640 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 398577006641 active site 398577006642 phosphorylation site [posttranslational modification] 398577006643 intermolecular recognition site; other site 398577006644 dimerization interface [polypeptide binding]; other site 398577006645 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 398577006646 Walker A motif; other site 398577006647 ATP binding site [chemical binding]; other site 398577006648 Walker B motif; other site 398577006649 arginine finger; other site 398577006650 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577006651 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398577006652 PAS domain; Region: PAS; smart00091 398577006653 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 398577006654 dimer interface [polypeptide binding]; other site 398577006655 phosphorylation site [posttranslational modification] 398577006656 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 398577006657 ATP binding site [chemical binding]; other site 398577006658 Mg2+ binding site [ion binding]; other site 398577006659 G-X-G motif; other site 398577006660 glutamine synthetase; Provisional; Region: glnA; PRK09469 398577006661 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 398577006662 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398577006663 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 398577006664 active site residue [active] 398577006665 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 398577006666 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 398577006667 putative MPT binding site; other site 398577006668 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 398577006669 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398577006670 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398577006671 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 398577006672 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 398577006673 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 398577006674 ATP binding site [chemical binding]; other site 398577006675 putative Mg++ binding site [ion binding]; other site 398577006676 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 398577006677 nucleotide binding region [chemical binding]; other site 398577006678 ATP-binding site [chemical binding]; other site 398577006679 Helicase associated domain (HA2); Region: HA2; pfam04408 398577006680 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 398577006681 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 398577006682 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 398577006683 N-acetylglutamate synthase; Validated; Region: PRK05279 398577006684 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 398577006685 putative feedback inhibition sensing region; other site 398577006686 putative nucleotide binding site [chemical binding]; other site 398577006687 putative substrate binding site [chemical binding]; other site 398577006688 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577006689 Coenzyme A binding pocket [chemical binding]; other site 398577006690 oxidative damage protection protein; Provisional; Region: PRK05408 398577006691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577006692 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577006693 putative substrate translocation pore; other site 398577006694 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577006695 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577006696 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577006697 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577006698 active site 398577006699 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398577006700 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577006701 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 398577006702 dimerization interface [polypeptide binding]; other site 398577006703 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 398577006704 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577006705 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 398577006706 trimer interface [polypeptide binding]; other site 398577006707 eyelet of channel; other site 398577006708 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 398577006709 homotrimer interaction site [polypeptide binding]; other site 398577006710 putative active site [active] 398577006711 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398577006712 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 398577006713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577006714 homodimer interface [polypeptide binding]; other site 398577006715 catalytic residue [active] 398577006716 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 398577006717 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 398577006718 putative DNA binding site [nucleotide binding]; other site 398577006719 putative Zn2+ binding site [ion binding]; other site 398577006720 AsnC family; Region: AsnC_trans_reg; pfam01037 398577006721 putative aminotransferase; Validated; Region: PRK07480 398577006722 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 398577006723 inhibitor-cofactor binding pocket; inhibition site 398577006724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577006725 catalytic residue [active] 398577006726 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 398577006727 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 398577006728 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398577006729 Peptidase C26; Region: Peptidase_C26; pfam07722 398577006730 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 398577006731 catalytic triad [active] 398577006732 N-formylglutamate amidohydrolase; Region: FGase; cl01522 398577006733 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 398577006734 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 398577006735 active site 398577006736 imidazolonepropionase; Validated; Region: PRK09356 398577006737 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 398577006738 active site 398577006739 HutD; Region: HutD; pfam05962 398577006740 urocanate hydratase; Provisional; Region: PRK05414 398577006741 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 398577006742 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577006743 DNA-binding site [nucleotide binding]; DNA binding site 398577006744 UTRA domain; Region: UTRA; pfam07702 398577006745 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398577006746 active sites [active] 398577006747 tetramer interface [polypeptide binding]; other site 398577006748 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577006749 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 398577006750 substrate binding pocket [chemical binding]; other site 398577006751 membrane-bound complex binding site; other site 398577006752 hinge residues; other site 398577006753 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 398577006754 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 398577006755 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 398577006756 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577006757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577006758 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 398577006759 dimerization interface [polypeptide binding]; other site 398577006760 substrate binding pocket [chemical binding]; other site 398577006761 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577006762 putative substrate translocation pore; other site 398577006763 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577006764 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 398577006765 DNA photolyase; Region: DNA_photolyase; pfam00875 398577006766 D-galactonate transporter; Region: 2A0114; TIGR00893 398577006767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577006768 putative substrate translocation pore; other site 398577006769 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 398577006770 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577006771 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577006772 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577006773 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398577006774 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398577006775 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 398577006776 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 398577006777 non-specific DNA binding site [nucleotide binding]; other site 398577006778 salt bridge; other site 398577006779 sequence-specific DNA binding site [nucleotide binding]; other site 398577006780 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398577006781 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 398577006782 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 398577006783 acetyl-CoA synthetase; Provisional; Region: PRK00174 398577006784 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 398577006785 active site 398577006786 CoA binding site [chemical binding]; other site 398577006787 acyl-activating enzyme (AAE) consensus motif; other site 398577006788 AMP binding site [chemical binding]; other site 398577006789 acetate binding site [chemical binding]; other site 398577006790 EamA-like transporter family; Region: EamA; pfam00892 398577006791 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398577006792 EamA-like transporter family; Region: EamA; pfam00892 398577006793 hypothetical protein; Provisional; Region: PRK05208 398577006794 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 398577006795 Fumarase C-terminus; Region: Fumerase_C; pfam05683 398577006796 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 398577006797 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 398577006798 heme binding site [chemical binding]; other site 398577006799 ferroxidase pore; other site 398577006800 ferroxidase diiron center [ion binding]; other site 398577006801 glutamate racemase; Provisional; Region: PRK00865 398577006802 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 398577006803 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 398577006804 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 398577006805 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 398577006806 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 398577006807 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 398577006808 LysR family transcriptional regulator; Provisional; Region: PRK14997 398577006809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577006810 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 398577006811 putative effector binding pocket; other site 398577006812 putative dimerization interface [polypeptide binding]; other site 398577006813 Pirin-related protein [General function prediction only]; Region: COG1741 398577006814 Pirin; Region: Pirin; pfam02678 398577006815 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398577006816 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 398577006817 putative hydrophobic ligand binding site [chemical binding]; other site 398577006818 Hemin uptake protein hemP; Region: hemP; pfam10636 398577006819 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 398577006820 4Fe-4S binding domain; Region: Fer4_5; pfam12801 398577006821 Iron permease FTR1 family; Region: FTR1; cl00475 398577006822 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 398577006823 Fe2+ transport protein; Region: Iron_transport; pfam10634 398577006824 excinuclease ABC subunit B; Provisional; Region: PRK05298 398577006825 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 398577006826 ATP binding site [chemical binding]; other site 398577006827 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 398577006828 nucleotide binding region [chemical binding]; other site 398577006829 ATP-binding site [chemical binding]; other site 398577006830 Ultra-violet resistance protein B; Region: UvrB; pfam12344 398577006831 UvrB/uvrC motif; Region: UVR; pfam02151 398577006832 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398577006833 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 398577006834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577006835 homodimer interface [polypeptide binding]; other site 398577006836 catalytic residue [active] 398577006837 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 398577006838 classical (c) SDRs; Region: SDR_c; cd05233 398577006839 NAD(P) binding site [chemical binding]; other site 398577006840 active site 398577006841 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 398577006842 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 398577006843 active site 398577006844 catalytic tetrad [active] 398577006845 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 398577006846 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 398577006847 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 398577006848 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 398577006849 DNA binding residues [nucleotide binding] 398577006850 dimer interface [polypeptide binding]; other site 398577006851 copper binding site [ion binding]; other site 398577006852 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 398577006853 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577006854 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 398577006855 DNA binding residues [nucleotide binding] 398577006856 Predicted membrane protein [Function unknown]; Region: COG3235 398577006857 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 398577006858 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 398577006859 putative active site [active] 398577006860 Zn binding site [ion binding]; other site 398577006861 hypothetical protein; Validated; Region: PRK02101 398577006862 PIN domain; Region: PIN_3; pfam13470 398577006863 methionine aminotransferase; Validated; Region: PRK09082 398577006864 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 398577006865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577006866 homodimer interface [polypeptide binding]; other site 398577006867 catalytic residue [active] 398577006868 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577006869 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 398577006870 C-terminal domain interface [polypeptide binding]; other site 398577006871 GSH binding site (G-site) [chemical binding]; other site 398577006872 dimer interface [polypeptide binding]; other site 398577006873 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 398577006874 putative N-terminal domain interface [polypeptide binding]; other site 398577006875 putative dimer interface [polypeptide binding]; other site 398577006876 putative substrate binding pocket (H-site) [chemical binding]; other site 398577006877 enoyl-CoA hydratase; Provisional; Region: PRK07511 398577006878 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 398577006879 substrate binding site [chemical binding]; other site 398577006880 oxyanion hole (OAH) forming residues; other site 398577006881 trimer interface [polypeptide binding]; other site 398577006882 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 398577006883 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 398577006884 C-terminal domain interface [polypeptide binding]; other site 398577006885 GSH binding site (G-site) [chemical binding]; other site 398577006886 dimer interface [polypeptide binding]; other site 398577006887 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 398577006888 N-terminal domain interface [polypeptide binding]; other site 398577006889 putative dimer interface [polypeptide binding]; other site 398577006890 active site 398577006891 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 398577006892 putative active site [active] 398577006893 putative catalytic site [active] 398577006894 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 398577006895 putative active site [active] 398577006896 putative catalytic site [active] 398577006897 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 398577006898 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398577006899 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398577006900 active site 398577006901 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 398577006902 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 398577006903 FAD binding site [chemical binding]; other site 398577006904 substrate binding site [chemical binding]; other site 398577006905 catalytic base [active] 398577006906 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 398577006907 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 398577006908 dimer interface [polypeptide binding]; other site 398577006909 ADP-ribose binding site [chemical binding]; other site 398577006910 active site 398577006911 nudix motif; other site 398577006912 metal binding site [ion binding]; metal-binding site 398577006913 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 398577006914 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 398577006915 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398577006916 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 398577006917 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398577006918 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 398577006919 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 398577006920 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 398577006921 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 398577006922 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 398577006923 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 398577006924 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 398577006925 4Fe-4S binding domain; Region: Fer4; cl02805 398577006926 4Fe-4S binding domain; Region: Fer4; pfam00037 398577006927 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 398577006928 NADH dehydrogenase subunit G; Validated; Region: PRK09129 398577006929 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 398577006930 catalytic loop [active] 398577006931 iron binding site [ion binding]; other site 398577006932 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 398577006933 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 398577006934 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 398577006935 SLBB domain; Region: SLBB; pfam10531 398577006936 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 398577006937 NADH dehydrogenase subunit E; Validated; Region: PRK07539 398577006938 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 398577006939 putative dimer interface [polypeptide binding]; other site 398577006940 [2Fe-2S] cluster binding site [ion binding]; other site 398577006941 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 398577006942 NADH dehydrogenase subunit D; Validated; Region: PRK06075 398577006943 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 398577006944 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 398577006945 NADH dehydrogenase subunit B; Validated; Region: PRK06411 398577006946 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 398577006947 Preprotein translocase SecG subunit; Region: SecG; pfam03840 398577006948 triosephosphate isomerase; Provisional; Region: PRK14567 398577006949 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 398577006950 substrate binding site [chemical binding]; other site 398577006951 dimer interface [polypeptide binding]; other site 398577006952 catalytic triad [active] 398577006953 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 398577006954 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 398577006955 NAD(P) binding site [chemical binding]; other site 398577006956 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 398577006957 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 398577006958 RNase E interface [polypeptide binding]; other site 398577006959 trimer interface [polypeptide binding]; other site 398577006960 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 398577006961 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 398577006962 RNase E interface [polypeptide binding]; other site 398577006963 trimer interface [polypeptide binding]; other site 398577006964 active site 398577006965 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 398577006966 putative nucleic acid binding region [nucleotide binding]; other site 398577006967 G-X-X-G motif; other site 398577006968 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 398577006969 RNA binding site [nucleotide binding]; other site 398577006970 domain interface; other site 398577006971 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 398577006972 16S/18S rRNA binding site [nucleotide binding]; other site 398577006973 S13e-L30e interaction site [polypeptide binding]; other site 398577006974 25S rRNA binding site [nucleotide binding]; other site 398577006975 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 398577006976 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 398577006977 putative ligand binding site [chemical binding]; other site 398577006978 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 398577006979 active site clefts [active] 398577006980 zinc binding site [ion binding]; other site 398577006981 dimer interface [polypeptide binding]; other site 398577006982 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 398577006983 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398577006984 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398577006985 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 398577006986 2-isopropylmalate synthase; Validated; Region: PRK00915 398577006987 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 398577006988 active site 398577006989 catalytic residues [active] 398577006990 metal binding site [ion binding]; metal-binding site 398577006991 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 398577006992 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 398577006993 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 398577006994 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 398577006995 ketol-acid reductoisomerase; Provisional; Region: PRK05479 398577006996 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 398577006997 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 398577006998 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 398577006999 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 398577007000 putative valine binding site [chemical binding]; other site 398577007001 dimer interface [polypeptide binding]; other site 398577007002 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 398577007003 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 398577007004 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398577007005 PYR/PP interface [polypeptide binding]; other site 398577007006 dimer interface [polypeptide binding]; other site 398577007007 TPP binding site [chemical binding]; other site 398577007008 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398577007009 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 398577007010 TPP-binding site [chemical binding]; other site 398577007011 dimer interface [polypeptide binding]; other site 398577007012 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577007013 RNA polymerase factor sigma-70; Validated; Region: PRK09047 398577007014 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 398577007015 DNA binding residues [nucleotide binding] 398577007016 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 398577007017 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 398577007018 RDD family; Region: RDD; pfam06271 398577007019 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 398577007020 putative active site [active] 398577007021 putative metal binding site [ion binding]; other site 398577007022 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577007023 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 398577007024 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 398577007025 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577007026 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577007027 Bacterial transcriptional repressor; Region: TetR; pfam13972 398577007028 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 398577007029 glucose-1-dehydrogenase; Provisional; Region: PRK06947 398577007030 classical (c) SDRs; Region: SDR_c; cd05233 398577007031 NAD(P) binding site [chemical binding]; other site 398577007032 active site 398577007033 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 398577007034 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 398577007035 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 398577007036 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 398577007037 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 398577007038 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 398577007039 apolar tunnel; other site 398577007040 heme binding site [chemical binding]; other site 398577007041 dimerization interface [polypeptide binding]; other site 398577007042 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 398577007043 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 398577007044 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 398577007045 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 398577007046 Domain of unknown function (DUF333); Region: DUF333; pfam03891 398577007047 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 398577007048 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 398577007049 active site 398577007050 phosphorylation site [posttranslational modification] 398577007051 intermolecular recognition site; other site 398577007052 dimerization interface [polypeptide binding]; other site 398577007053 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 398577007054 DNA binding site [nucleotide binding] 398577007055 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 398577007056 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 398577007057 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 398577007058 Ligand Binding Site [chemical binding]; other site 398577007059 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 398577007060 GAF domain; Region: GAF_3; pfam13492 398577007061 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 398577007062 dimer interface [polypeptide binding]; other site 398577007063 phosphorylation site [posttranslational modification] 398577007064 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 398577007065 ATP binding site [chemical binding]; other site 398577007066 Mg2+ binding site [ion binding]; other site 398577007067 G-X-G motif; other site 398577007068 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 398577007069 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 398577007070 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398577007071 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 398577007072 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 398577007073 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 398577007074 NADP binding site [chemical binding]; other site 398577007075 dimer interface [polypeptide binding]; other site 398577007076 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 398577007077 substrate binding site [chemical binding]; other site 398577007078 short chain dehydrogenase; Provisional; Region: PRK08339 398577007079 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 398577007080 putative NAD(P) binding site [chemical binding]; other site 398577007081 putative active site [active] 398577007082 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398577007083 active site 398577007084 hypothetical protein; Validated; Region: PRK00110 398577007085 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 398577007086 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 398577007087 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 398577007088 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 398577007089 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 398577007090 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 398577007091 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 398577007092 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 398577007093 active site 398577007094 (T/H)XGH motif; other site 398577007095 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 398577007096 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 398577007097 Maf-like protein; Region: Maf; pfam02545 398577007098 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 398577007099 active site 398577007100 dimer interface [polypeptide binding]; other site 398577007101 ribonuclease G; Provisional; Region: PRK11712 398577007102 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 398577007103 homodimer interface [polypeptide binding]; other site 398577007104 oligonucleotide binding site [chemical binding]; other site 398577007105 Protein with unknown function (DUF469); Region: DUF469; pfam04320 398577007106 PRC-barrel domain; Region: PRC; pfam05239 398577007107 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577007108 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577007109 putative substrate translocation pore; other site 398577007110 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 398577007111 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 398577007112 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398577007113 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 398577007114 Walker A/P-loop; other site 398577007115 ATP binding site [chemical binding]; other site 398577007116 Q-loop/lid; other site 398577007117 ABC transporter signature motif; other site 398577007118 Walker B; other site 398577007119 D-loop; other site 398577007120 H-loop/switch region; other site 398577007121 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 398577007122 putative metal binding site; other site 398577007123 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398577007124 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 398577007125 active site 398577007126 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 398577007127 O-Antigen ligase; Region: Wzy_C; pfam04932 398577007128 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398577007129 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 398577007130 putative active site [active] 398577007131 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398577007132 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 398577007133 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 398577007134 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 398577007135 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 398577007136 putative active site [active] 398577007137 putative PHP Thumb interface [polypeptide binding]; other site 398577007138 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 398577007139 generic binding surface II; other site 398577007140 generic binding surface I; other site 398577007141 rhodanese superfamily protein; Provisional; Region: PRK05320 398577007142 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 398577007143 active site residue [active] 398577007144 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 398577007145 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 398577007146 active site 398577007147 HIGH motif; other site 398577007148 nucleotide binding site [chemical binding]; other site 398577007149 active site 398577007150 KMSKS motif; other site 398577007151 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 398577007152 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398577007153 ATP binding site [chemical binding]; other site 398577007154 Mg++ binding site [ion binding]; other site 398577007155 motif III; other site 398577007156 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 398577007157 nucleotide binding region [chemical binding]; other site 398577007158 ATP-binding site [chemical binding]; other site 398577007159 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 398577007160 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 398577007161 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 398577007162 NAD binding site [chemical binding]; other site 398577007163 ATP-grasp domain; Region: ATP-grasp; pfam02222 398577007164 META domain; Region: META; pfam03724 398577007165 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 398577007166 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 398577007167 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 398577007168 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 398577007169 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 398577007170 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 398577007171 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 398577007172 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 398577007173 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577007174 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577007175 ferredoxin; Provisional; Region: PRK06991 398577007176 Putative Fe-S cluster; Region: FeS; pfam04060 398577007177 4Fe-4S binding domain; Region: Fer4; pfam00037 398577007178 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 398577007179 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398577007180 minor groove reading motif; other site 398577007181 helix-hairpin-helix signature motif; other site 398577007182 substrate binding pocket [chemical binding]; other site 398577007183 active site 398577007184 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 398577007185 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398577007186 EamA-like transporter family; Region: EamA; pfam00892 398577007187 EamA-like transporter family; Region: EamA; pfam00892 398577007188 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 398577007189 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577007190 Cytochrome c553 [Energy production and conversion]; Region: COG2863 398577007191 Cytochrome c; Region: Cytochrom_C; cl11414 398577007192 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398577007193 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 398577007194 Walker A motif; other site 398577007195 ATP binding site [chemical binding]; other site 398577007196 Walker B motif; other site 398577007197 arginine finger; other site 398577007198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 398577007199 Benzoate membrane transport protein; Region: BenE; pfam03594 398577007200 benzoate transporter; Region: benE; TIGR00843 398577007201 transaldolase-like protein; Provisional; Region: PTZ00411 398577007202 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 398577007203 active site 398577007204 dimer interface [polypeptide binding]; other site 398577007205 catalytic residue [active] 398577007206 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 398577007207 dimer interface [polypeptide binding]; other site 398577007208 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577007209 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 398577007210 Na binding site [ion binding]; other site 398577007211 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 398577007212 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 398577007213 Helix-turn-helix domain; Region: HTH_37; pfam13744 398577007214 sequence-specific DNA binding site [nucleotide binding]; other site 398577007215 salt bridge; other site 398577007216 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 398577007217 putative active site [active] 398577007218 Chorismate lyase; Region: Chor_lyase; cl01230 398577007219 heat shock protein 90; Provisional; Region: PRK05218 398577007220 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 398577007221 ATP binding site [chemical binding]; other site 398577007222 Mg2+ binding site [ion binding]; other site 398577007223 G-X-G motif; other site 398577007224 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 398577007225 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577007226 DNA-binding site [nucleotide binding]; DNA binding site 398577007227 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 398577007228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577007229 homodimer interface [polypeptide binding]; other site 398577007230 catalytic residue [active] 398577007231 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 398577007232 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398577007233 EamA-like transporter family; Region: EamA; pfam00892 398577007234 EamA-like transporter family; Region: EamA; pfam00892 398577007235 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398577007236 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 398577007237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577007238 homodimer interface [polypeptide binding]; other site 398577007239 catalytic residue [active] 398577007240 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 398577007241 homotrimer interaction site [polypeptide binding]; other site 398577007242 putative active site [active] 398577007243 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 398577007244 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398577007245 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577007246 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577007247 metal binding site [ion binding]; metal-binding site 398577007248 active site 398577007249 I-site; other site 398577007250 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 398577007251 Chromate transporter; Region: Chromate_transp; pfam02417 398577007252 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 398577007253 Chromate transporter; Region: Chromate_transp; pfam02417 398577007254 Predicted membrane protein [Function unknown]; Region: COG4125 398577007255 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398577007256 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398577007257 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577007258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577007259 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 398577007260 dimerization interface [polypeptide binding]; other site 398577007261 Predicted integral membrane protein [Function unknown]; Region: COG5615 398577007262 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 398577007263 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 398577007264 CAP-like domain; other site 398577007265 active site 398577007266 primary dimer interface [polypeptide binding]; other site 398577007267 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 398577007268 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 398577007269 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 398577007270 ATP binding site [chemical binding]; other site 398577007271 Mg2+ binding site [ion binding]; other site 398577007272 G-X-G motif; other site 398577007273 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 398577007274 anchoring element; other site 398577007275 dimer interface [polypeptide binding]; other site 398577007276 ATP binding site [chemical binding]; other site 398577007277 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 398577007278 active site 398577007279 metal binding site [ion binding]; metal-binding site 398577007280 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 398577007281 ABC transporter ATPase component; Reviewed; Region: PRK11147 398577007282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577007283 Walker A/P-loop; other site 398577007284 ATP binding site [chemical binding]; other site 398577007285 Q-loop/lid; other site 398577007286 ABC transporter signature motif; other site 398577007287 Walker B; other site 398577007288 D-loop; other site 398577007289 H-loop/switch region; other site 398577007290 ABC transporter; Region: ABC_tran_2; pfam12848 398577007291 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398577007292 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 398577007293 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 398577007294 Rubredoxin; Region: Rubredoxin; pfam00301 398577007295 iron binding site [ion binding]; other site 398577007296 Sulfatase; Region: Sulfatase; cl17466 398577007297 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 398577007298 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 398577007299 Ligand binding site; other site 398577007300 Putative Catalytic site; other site 398577007301 DXD motif; other site 398577007302 Predicted membrane protein [Function unknown]; Region: COG2246 398577007303 GtrA-like protein; Region: GtrA; pfam04138 398577007304 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 398577007305 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 398577007306 PYR/PP interface [polypeptide binding]; other site 398577007307 dimer interface [polypeptide binding]; other site 398577007308 TPP binding site [chemical binding]; other site 398577007309 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398577007310 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 398577007311 TPP-binding site [chemical binding]; other site 398577007312 dimer interface [polypeptide binding]; other site 398577007313 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577007314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577007315 NAD(P) binding site [chemical binding]; other site 398577007316 active site 398577007317 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 398577007318 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 398577007319 inhibitor-cofactor binding pocket; inhibition site 398577007320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577007321 catalytic residue [active] 398577007322 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 398577007323 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 398577007324 NAD binding site [chemical binding]; other site 398577007325 homotetramer interface [polypeptide binding]; other site 398577007326 homodimer interface [polypeptide binding]; other site 398577007327 substrate binding site [chemical binding]; other site 398577007328 active site 398577007329 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 398577007330 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 398577007331 substrate binding site; other site 398577007332 Right handed beta helix region; Region: Beta_helix; pfam13229 398577007333 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398577007334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577007335 NAD(P) binding site [chemical binding]; other site 398577007336 active site 398577007337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577007338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577007339 ecotin; Provisional; Region: PRK03719 398577007340 secondary substrate binding site; other site 398577007341 primary substrate binding site; other site 398577007342 inhibition loop; other site 398577007343 dimerization interface [polypeptide binding]; other site 398577007344 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577007345 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577007346 putative substrate translocation pore; other site 398577007347 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577007348 Predicted ATPase [General function prediction only]; Region: COG3911 398577007349 AAA domain; Region: AAA_28; pfam13521 398577007350 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 398577007351 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 398577007352 active site 398577007353 homotetramer interface [polypeptide binding]; other site 398577007354 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398577007355 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398577007356 Walker A/P-loop; other site 398577007357 ATP binding site [chemical binding]; other site 398577007358 Q-loop/lid; other site 398577007359 ABC transporter signature motif; other site 398577007360 Walker B; other site 398577007361 D-loop; other site 398577007362 H-loop/switch region; other site 398577007363 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 398577007364 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 398577007365 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 398577007366 dimer interface [polypeptide binding]; other site 398577007367 conserved gate region; other site 398577007368 putative PBP binding loops; other site 398577007369 ABC-ATPase subunit interface; other site 398577007370 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 398577007371 dimer interface [polypeptide binding]; other site 398577007372 conserved gate region; other site 398577007373 putative PBP binding loops; other site 398577007374 ABC-ATPase subunit interface; other site 398577007375 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577007376 HAMP domain; Region: HAMP; pfam00672 398577007377 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 398577007378 dimer interface [polypeptide binding]; other site 398577007379 phosphorylation site [posttranslational modification] 398577007380 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 398577007381 ATP binding site [chemical binding]; other site 398577007382 Mg2+ binding site [ion binding]; other site 398577007383 G-X-G motif; other site 398577007384 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398577007385 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 398577007386 active site 398577007387 phosphorylation site [posttranslational modification] 398577007388 intermolecular recognition site; other site 398577007389 dimerization interface [polypeptide binding]; other site 398577007390 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 398577007391 DNA binding site [nucleotide binding] 398577007392 Pirin-related protein [General function prediction only]; Region: COG1741 398577007393 Pirin; Region: Pirin; pfam02678 398577007394 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398577007395 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 398577007396 substrate binding pocket [chemical binding]; other site 398577007397 membrane-bound complex binding site; other site 398577007398 hinge residues; other site 398577007399 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577007400 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 398577007401 dimer interface [polypeptide binding]; other site 398577007402 conserved gate region; other site 398577007403 putative PBP binding loops; other site 398577007404 ABC-ATPase subunit interface; other site 398577007405 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577007406 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 398577007407 dimer interface [polypeptide binding]; other site 398577007408 conserved gate region; other site 398577007409 putative PBP binding loops; other site 398577007410 ABC-ATPase subunit interface; other site 398577007411 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 398577007412 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577007413 Walker A/P-loop; other site 398577007414 ATP binding site [chemical binding]; other site 398577007415 Q-loop/lid; other site 398577007416 ABC transporter signature motif; other site 398577007417 Walker B; other site 398577007418 D-loop; other site 398577007419 H-loop/switch region; other site 398577007420 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398577007421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577007422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577007423 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 398577007424 putative substrate binding pocket [chemical binding]; other site 398577007425 dimerization interface [polypeptide binding]; other site 398577007426 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577007427 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 398577007428 trimer interface [polypeptide binding]; other site 398577007429 eyelet of channel; other site 398577007430 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398577007431 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398577007432 NAD synthetase; Provisional; Region: PRK13981 398577007433 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 398577007434 multimer interface [polypeptide binding]; other site 398577007435 active site 398577007436 catalytic triad [active] 398577007437 protein interface 1 [polypeptide binding]; other site 398577007438 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 398577007439 homodimer interface [polypeptide binding]; other site 398577007440 NAD binding pocket [chemical binding]; other site 398577007441 ATP binding pocket [chemical binding]; other site 398577007442 Mg binding site [ion binding]; other site 398577007443 active-site loop [active] 398577007444 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 398577007445 Protein of unknown function, DUF482; Region: DUF482; pfam04339 398577007446 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 398577007447 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 398577007448 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 398577007449 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 398577007450 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577007451 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577007452 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 398577007453 GIY-YIG motif/motif A; other site 398577007454 putative active site [active] 398577007455 putative metal binding site [ion binding]; other site 398577007456 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 398577007457 dimer interface [polypeptide binding]; other site 398577007458 substrate binding site [chemical binding]; other site 398577007459 metal binding sites [ion binding]; metal-binding site 398577007460 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577007461 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 398577007462 NAD(P) binding site [chemical binding]; other site 398577007463 catalytic residues [active] 398577007464 catalytic residues [active] 398577007465 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 398577007466 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 398577007467 putative NAD(P) binding site [chemical binding]; other site 398577007468 active site 398577007469 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398577007470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577007471 putative substrate translocation pore; other site 398577007472 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 398577007473 HemY protein N-terminus; Region: HemY_N; pfam07219 398577007474 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 398577007475 TPR motif; other site 398577007476 binding surface 398577007477 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 398577007478 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 398577007479 active site 398577007480 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 398577007481 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 398577007482 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 398577007483 domain interfaces; other site 398577007484 active site 398577007485 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 398577007486 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 398577007487 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 398577007488 S-adenosylmethionine binding site [chemical binding]; other site 398577007489 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577007490 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 398577007491 sequence-specific DNA binding site [nucleotide binding]; other site 398577007492 salt bridge; other site 398577007493 Spore Coat Protein U domain; Region: SCPU; pfam05229 398577007494 Uncharacterized secreted protein [Function unknown]; Region: COG5430 398577007495 Uncharacterized secreted protein [Function unknown]; Region: COG5430 398577007496 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 398577007497 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398577007498 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398577007499 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398577007500 PapC C-terminal domain; Region: PapC_C; pfam13953 398577007501 argininosuccinate lyase; Provisional; Region: PRK00855 398577007502 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 398577007503 active sites [active] 398577007504 tetramer interface [polypeptide binding]; other site 398577007505 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 398577007506 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 398577007507 motif II; other site 398577007508 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 398577007509 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 398577007510 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 398577007511 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 398577007512 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 398577007513 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577007514 catalytic residue [active] 398577007515 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 398577007516 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398577007517 trimer interface [polypeptide binding]; other site 398577007518 active site 398577007519 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 398577007520 E-class dimer interface [polypeptide binding]; other site 398577007521 P-class dimer interface [polypeptide binding]; other site 398577007522 active site 398577007523 Cu2+ binding site [ion binding]; other site 398577007524 Zn2+ binding site [ion binding]; other site 398577007525 Domain of unknown function DUF59; Region: DUF59; pfam01883 398577007526 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 398577007527 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 398577007528 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398577007529 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577007530 ligand binding site [chemical binding]; other site 398577007531 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 398577007532 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 398577007533 active site 398577007534 HIGH motif; other site 398577007535 KMSKS motif; other site 398577007536 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 398577007537 tRNA binding surface [nucleotide binding]; other site 398577007538 anticodon binding site; other site 398577007539 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 398577007540 dimer interface [polypeptide binding]; other site 398577007541 putative tRNA-binding site [nucleotide binding]; other site 398577007542 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 398577007543 Transposase; Region: HTH_Tnp_1; cl17663 398577007544 Helix-turn-helix domain; Region: HTH_28; pfam13518 398577007545 putative transposase OrfB; Reviewed; Region: PHA02517 398577007546 HTH-like domain; Region: HTH_21; pfam13276 398577007547 Integrase core domain; Region: rve; pfam00665 398577007548 Integrase core domain; Region: rve_2; pfam13333 398577007549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 398577007550 Family of unknown function (DUF490); Region: DUF490; pfam04357 398577007551 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 398577007552 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398577007553 Surface antigen; Region: Bac_surface_Ag; pfam01103 398577007554 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 398577007555 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 398577007556 pantoate--beta-alanine ligase; Region: panC; TIGR00018 398577007557 Pantoate-beta-alanine ligase; Region: PanC; cd00560 398577007558 active site 398577007559 ATP-binding site [chemical binding]; other site 398577007560 pantoate-binding site; other site 398577007561 HXXH motif; other site 398577007562 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 398577007563 tetramerization interface [polypeptide binding]; other site 398577007564 active site 398577007565 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398577007566 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 398577007567 P-loop; other site 398577007568 Magnesium ion binding site [ion binding]; other site 398577007569 DoxX; Region: DoxX; pfam07681 398577007570 cobyric acid synthase; Provisional; Region: PRK00784 398577007571 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 398577007572 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 398577007573 catalytic triad [active] 398577007574 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 398577007575 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 398577007576 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 398577007577 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 398577007578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577007579 homodimer interface [polypeptide binding]; other site 398577007580 catalytic residue [active] 398577007581 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 398577007582 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 398577007583 cobalamin binding residues [chemical binding]; other site 398577007584 putative BtuC binding residues; other site 398577007585 dimer interface [polypeptide binding]; other site 398577007586 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 398577007587 catalytic core [active] 398577007588 cobalamin synthase; Reviewed; Region: cobS; PRK00235 398577007589 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 398577007590 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 398577007591 putative dimer interface [polypeptide binding]; other site 398577007592 active site pocket [active] 398577007593 putative cataytic base [active] 398577007594 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 398577007595 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398577007596 Walker A/P-loop; other site 398577007597 ATP binding site [chemical binding]; other site 398577007598 Q-loop/lid; other site 398577007599 ABC transporter signature motif; other site 398577007600 Walker B; other site 398577007601 D-loop; other site 398577007602 H-loop/switch region; other site 398577007603 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 398577007604 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 398577007605 ABC-ATPase subunit interface; other site 398577007606 dimer interface [polypeptide binding]; other site 398577007607 putative PBP binding regions; other site 398577007608 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 398577007609 Cell division protein ZapA; Region: ZapA; pfam05164 398577007610 Uncharacterized conserved protein [Function unknown]; Region: COG2947 398577007611 Protein of unknown function (DUF541); Region: SIMPL; cl01077 398577007612 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 398577007613 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 398577007614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577007615 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 398577007616 putative dimerization interface [polypeptide binding]; other site 398577007617 putative substrate binding pocket [chemical binding]; other site 398577007618 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 398577007619 Cytochrome c; Region: Cytochrom_C; cl11414 398577007620 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 398577007621 DNA polymerase III subunit chi; Validated; Region: PRK05728 398577007622 multifunctional aminopeptidase A; Provisional; Region: PRK00913 398577007623 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 398577007624 interface (dimer of trimers) [polypeptide binding]; other site 398577007625 Substrate-binding/catalytic site; other site 398577007626 Zn-binding sites [ion binding]; other site 398577007627 Predicted permeases [General function prediction only]; Region: COG0795 398577007628 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398577007629 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 398577007630 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 398577007631 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 398577007632 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 398577007633 putative active site [active] 398577007634 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 398577007635 active site 398577007636 SAM binding site [chemical binding]; other site 398577007637 homodimer interface [polypeptide binding]; other site 398577007638 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 398577007639 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 398577007640 CysD dimerization site [polypeptide binding]; other site 398577007641 G1 box; other site 398577007642 putative GEF interaction site [polypeptide binding]; other site 398577007643 GTP/Mg2+ binding site [chemical binding]; other site 398577007644 Switch I region; other site 398577007645 G2 box; other site 398577007646 G3 box; other site 398577007647 Switch II region; other site 398577007648 G4 box; other site 398577007649 G5 box; other site 398577007650 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 398577007651 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 398577007652 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 398577007653 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 398577007654 Active Sites [active] 398577007655 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 398577007656 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 398577007657 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 398577007658 Active Sites [active] 398577007659 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 398577007660 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 398577007661 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398577007662 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398577007663 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 398577007664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577007665 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 398577007666 substrate binding site [chemical binding]; other site 398577007667 dimerization interface [polypeptide binding]; other site 398577007668 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 398577007669 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577007670 putative ligand binding site [chemical binding]; other site 398577007671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577007672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577007673 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 398577007674 putative effector binding pocket; other site 398577007675 dimerization interface [polypeptide binding]; other site 398577007676 short chain dehydrogenase; Provisional; Region: PRK12937 398577007677 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 398577007678 NADP binding site [chemical binding]; other site 398577007679 homodimer interface [polypeptide binding]; other site 398577007680 active site 398577007681 substrate binding site [chemical binding]; other site 398577007682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577007683 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577007684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577007685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577007686 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 398577007687 dimerization interface [polypeptide binding]; other site 398577007688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577007689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577007690 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 398577007691 putative effector binding pocket; other site 398577007692 putative dimerization interface [polypeptide binding]; other site 398577007693 short chain dehydrogenase; Provisional; Region: PRK12744 398577007694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577007695 NAD(P) binding site [chemical binding]; other site 398577007696 active site 398577007697 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; cl09940 398577007698 RNA binding surface [nucleotide binding]; other site 398577007699 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 398577007700 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 398577007701 active site 398577007702 uracil binding [chemical binding]; other site 398577007703 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577007704 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 398577007705 putative NAD(P) binding site [chemical binding]; other site 398577007706 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 398577007707 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 398577007708 catalytic loop [active] 398577007709 iron binding site [ion binding]; other site 398577007710 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 398577007711 FAD binding pocket [chemical binding]; other site 398577007712 FAD binding motif [chemical binding]; other site 398577007713 phosphate binding motif [ion binding]; other site 398577007714 beta-alpha-beta structure motif; other site 398577007715 NAD binding pocket [chemical binding]; other site 398577007716 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 398577007717 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 398577007718 inhibitor-cofactor binding pocket; inhibition site 398577007719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577007720 catalytic residue [active] 398577007721 putative acetyltransferase; Provisional; Region: PRK03624 398577007722 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577007723 Coenzyme A binding pocket [chemical binding]; other site 398577007724 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 398577007725 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398577007726 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398577007727 Walker A/P-loop; other site 398577007728 ATP binding site [chemical binding]; other site 398577007729 Q-loop/lid; other site 398577007730 ABC transporter signature motif; other site 398577007731 Walker B; other site 398577007732 D-loop; other site 398577007733 H-loop/switch region; other site 398577007734 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398577007735 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398577007736 Walker A/P-loop; other site 398577007737 ATP binding site [chemical binding]; other site 398577007738 Q-loop/lid; other site 398577007739 ABC transporter signature motif; other site 398577007740 Walker B; other site 398577007741 D-loop; other site 398577007742 H-loop/switch region; other site 398577007743 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 398577007744 TM-ABC transporter signature motif; other site 398577007745 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577007746 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 398577007747 TM-ABC transporter signature motif; other site 398577007748 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 398577007749 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 398577007750 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398577007751 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 398577007752 hypothetical protein; Reviewed; Region: PRK00024 398577007753 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 398577007754 MPN+ (JAMM) motif; other site 398577007755 Zinc-binding site [ion binding]; other site 398577007756 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 398577007757 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 398577007758 L-aspartate oxidase; Provisional; Region: PRK09077 398577007759 L-aspartate oxidase; Provisional; Region: PRK06175 398577007760 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398577007761 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 398577007762 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 398577007763 dimerization interface [polypeptide binding]; other site 398577007764 active site 398577007765 quinolinate synthetase; Provisional; Region: PRK09375 398577007766 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 398577007767 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398577007768 Di-iron ligands [ion binding]; other site 398577007769 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398577007770 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398577007771 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398577007772 16S rRNA methyltransferase B; Provisional; Region: PRK14901 398577007773 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 398577007774 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 398577007775 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 398577007776 active site 398577007777 substrate binding site [chemical binding]; other site 398577007778 cosubstrate binding site; other site 398577007779 catalytic site [active] 398577007780 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 398577007781 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 398577007782 active site 398577007783 Riboflavin kinase; Region: Flavokinase; smart00904 398577007784 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 398577007785 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398577007786 active site 398577007787 HIGH motif; other site 398577007788 nucleotide binding site [chemical binding]; other site 398577007789 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 398577007790 active site 398577007791 KMSKS motif; other site 398577007792 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 398577007793 tRNA binding surface [nucleotide binding]; other site 398577007794 anticodon binding site; other site 398577007795 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398577007796 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 398577007797 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 398577007798 Flavoprotein; Region: Flavoprotein; pfam02441 398577007799 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 398577007800 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 398577007801 trimer interface [polypeptide binding]; other site 398577007802 active site 398577007803 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 398577007804 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 398577007805 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 398577007806 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 398577007807 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 398577007808 Clp amino terminal domain; Region: Clp_N; pfam02861 398577007809 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 398577007810 Walker A motif; other site 398577007811 ATP binding site [chemical binding]; other site 398577007812 Walker B motif; other site 398577007813 arginine finger; other site 398577007814 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 398577007815 Walker A motif; other site 398577007816 ATP binding site [chemical binding]; other site 398577007817 Walker B motif; other site 398577007818 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398577007819 Uncharacterized conserved protein [Function unknown]; Region: COG2127 398577007820 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 398577007821 DNA-binding site [nucleotide binding]; DNA binding site 398577007822 RNA-binding motif; other site 398577007823 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 398577007824 trimer interface [polypeptide binding]; other site 398577007825 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 398577007826 trimer interface [polypeptide binding]; other site 398577007827 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 398577007828 trimer interface [polypeptide binding]; other site 398577007829 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 398577007830 trimer interface [polypeptide binding]; other site 398577007831 YadA-like C-terminal region; Region: YadA; pfam03895 398577007832 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 398577007833 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 398577007834 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 398577007835 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 398577007836 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 398577007837 isocitrate dehydrogenase; Validated; Region: PRK07362 398577007838 isocitrate dehydrogenase; Reviewed; Region: PRK07006 398577007839 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 398577007840 pseudouridine synthase; Region: TIGR00093 398577007841 active site 398577007842 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 398577007843 elongation factor G; Reviewed; Region: PRK00007 398577007844 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 398577007845 G1 box; other site 398577007846 putative GEF interaction site [polypeptide binding]; other site 398577007847 GTP/Mg2+ binding site [chemical binding]; other site 398577007848 Switch I region; other site 398577007849 G2 box; other site 398577007850 G3 box; other site 398577007851 Switch II region; other site 398577007852 G4 box; other site 398577007853 G5 box; other site 398577007854 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 398577007855 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 398577007856 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 398577007857 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 398577007858 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 398577007859 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577007860 active site 398577007861 catalytic tetrad [active] 398577007862 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398577007863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577007864 DNA-binding site [nucleotide binding]; DNA binding site 398577007865 UTRA domain; Region: UTRA; pfam07702 398577007866 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577007867 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577007868 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577007869 MerR family regulatory protein; Region: MerR; pfam00376 398577007870 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 398577007871 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 398577007872 dimer interface [polypeptide binding]; other site 398577007873 active site 398577007874 oxalacetate/citrate binding site [chemical binding]; other site 398577007875 citrylCoA binding site [chemical binding]; other site 398577007876 coenzyme A binding site [chemical binding]; other site 398577007877 catalytic triad [active] 398577007878 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 398577007879 putative transporter; Provisional; Region: PRK10504 398577007880 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577007881 putative substrate translocation pore; other site 398577007882 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 398577007883 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 398577007884 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 398577007885 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398577007886 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398577007887 Predicted membrane protein [Function unknown]; Region: COG4539 398577007888 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 398577007889 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 398577007890 ligand binding site [chemical binding]; other site 398577007891 flexible hinge region; other site 398577007892 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 398577007893 putative switch regulator; other site 398577007894 non-specific DNA interactions [nucleotide binding]; other site 398577007895 DNA binding site [nucleotide binding] 398577007896 sequence specific DNA binding site [nucleotide binding]; other site 398577007897 putative cAMP binding site [chemical binding]; other site 398577007898 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 398577007899 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 398577007900 Chromate transporter; Region: Chromate_transp; pfam02417 398577007901 superoxide dismutase; Provisional; Region: PRK10543 398577007902 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 398577007903 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 398577007904 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 398577007905 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 398577007906 generic binding surface II; other site 398577007907 generic binding surface I; other site 398577007908 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 398577007909 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 398577007910 Uncharacterized conserved protein [Function unknown]; Region: COG2835 398577007911 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 398577007912 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 398577007913 Ligand binding site; other site 398577007914 oligomer interface; other site 398577007915 adenylate kinase; Reviewed; Region: adk; PRK00279 398577007916 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 398577007917 AMP-binding site [chemical binding]; other site 398577007918 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 398577007919 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 398577007920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577007921 NAD(P) binding site [chemical binding]; other site 398577007922 active site 398577007923 Uncharacterized conserved protein [Function unknown]; Region: COG2912 398577007924 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 398577007925 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 398577007926 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 398577007927 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 398577007928 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 398577007929 ornithine carbamoyltransferase; Provisional; Region: PRK00779 398577007930 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398577007931 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398577007932 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 398577007933 FAD binding domain; Region: FAD_binding_4; pfam01565 398577007934 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 398577007935 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 398577007936 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 398577007937 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 398577007938 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 398577007939 putative deacylase active site [active] 398577007940 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398577007941 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398577007942 acyl-activating enzyme (AAE) consensus motif; other site 398577007943 AMP binding site [chemical binding]; other site 398577007944 active site 398577007945 CoA binding site [chemical binding]; other site 398577007946 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 398577007947 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 398577007948 active site 398577007949 Int/Topo IB signature motif; other site 398577007950 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 398577007951 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 398577007952 DNA binding site [nucleotide binding] 398577007953 active site 398577007954 epoxyqueuosine reductase; Region: TIGR00276 398577007955 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 398577007956 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 398577007957 AMIN domain; Region: AMIN; pfam11741 398577007958 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 398577007959 active site 398577007960 metal binding site [ion binding]; metal-binding site 398577007961 EamA-like transporter family; Region: EamA; pfam00892 398577007962 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398577007963 Pirin-related protein [General function prediction only]; Region: COG1741 398577007964 Pirin; Region: Pirin; pfam02678 398577007965 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 398577007966 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 398577007967 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 398577007968 catalytic residues [active] 398577007969 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 398577007970 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 398577007971 putative ATP binding site [chemical binding]; other site 398577007972 putative substrate interface [chemical binding]; other site 398577007973 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 398577007974 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 398577007975 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 398577007976 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 398577007977 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 398577007978 S-adenosylmethionine binding site [chemical binding]; other site 398577007979 Protein of unknown function DUF72; Region: DUF72; pfam01904 398577007980 methionine sulfoxide reductase A; Provisional; Region: PRK14054 398577007981 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 398577007982 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 398577007983 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577007984 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 398577007985 putative DNA binding site [nucleotide binding]; other site 398577007986 putative Zn2+ binding site [ion binding]; other site 398577007987 AsnC family; Region: AsnC_trans_reg; pfam01037 398577007988 arylformamidase; Region: trp_arylform; TIGR03035 398577007989 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 398577007990 kynureninase; Region: kynureninase; TIGR01814 398577007991 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577007992 catalytic residue [active] 398577007993 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 398577007994 benzoate transport; Region: 2A0115; TIGR00895 398577007995 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577007996 putative substrate translocation pore; other site 398577007997 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577007998 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398577007999 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398577008000 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398577008001 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 398577008002 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 398577008003 NAD(P) binding site [chemical binding]; other site 398577008004 catalytic residues [active] 398577008005 benzoylformate decarboxylase; Reviewed; Region: PRK07092 398577008006 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398577008007 PYR/PP interface [polypeptide binding]; other site 398577008008 dimer interface [polypeptide binding]; other site 398577008009 TPP binding site [chemical binding]; other site 398577008010 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398577008011 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 398577008012 TPP-binding site [chemical binding]; other site 398577008013 dimer interface [polypeptide binding]; other site 398577008014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577008015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577008016 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398577008017 putative dimerization interface [polypeptide binding]; other site 398577008018 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 398577008019 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 398577008020 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 398577008021 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 398577008022 N- and C-terminal domain interface [polypeptide binding]; other site 398577008023 D-xylulose kinase; Region: XylB; TIGR01312 398577008024 active site 398577008025 MgATP binding site [chemical binding]; other site 398577008026 catalytic site [active] 398577008027 metal binding site [ion binding]; metal-binding site 398577008028 xylulose binding site [chemical binding]; other site 398577008029 homodimer interface [polypeptide binding]; other site 398577008030 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 398577008031 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 398577008032 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 398577008033 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 398577008034 Walker A/P-loop; other site 398577008035 ATP binding site [chemical binding]; other site 398577008036 Q-loop/lid; other site 398577008037 ABC transporter signature motif; other site 398577008038 Walker B; other site 398577008039 D-loop; other site 398577008040 H-loop/switch region; other site 398577008041 TOBE domain; Region: TOBE; pfam03459 398577008042 TOBE domain; Region: TOBE_2; pfam08402 398577008043 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 398577008044 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 398577008045 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398577008046 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 398577008047 dimer interface [polypeptide binding]; other site 398577008048 conserved gate region; other site 398577008049 putative PBP binding loops; other site 398577008050 ABC-ATPase subunit interface; other site 398577008051 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 398577008052 dimer interface [polypeptide binding]; other site 398577008053 conserved gate region; other site 398577008054 putative PBP binding loops; other site 398577008055 ABC-ATPase subunit interface; other site 398577008056 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 398577008057 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398577008058 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 398577008059 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 398577008060 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577008061 substrate binding site [chemical binding]; other site 398577008062 ATP binding site [chemical binding]; other site 398577008063 sorbitol dehydrogenase; Provisional; Region: PRK07067 398577008064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577008065 NAD(P) binding site [chemical binding]; other site 398577008066 active site 398577008067 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 398577008068 metal binding site 2 [ion binding]; metal-binding site 398577008069 putative DNA binding helix; other site 398577008070 metal binding site 1 [ion binding]; metal-binding site 398577008071 dimer interface [polypeptide binding]; other site 398577008072 structural Zn2+ binding site [ion binding]; other site 398577008073 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 398577008074 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 398577008075 metal binding site [ion binding]; metal-binding site 398577008076 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 398577008077 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 398577008078 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 398577008079 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 398577008080 ABC-ATPase subunit interface; other site 398577008081 dimer interface [polypeptide binding]; other site 398577008082 S-formylglutathione hydrolase; Region: PLN02442 398577008083 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 398577008084 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 398577008085 D-xylulose kinase; Region: XylB; TIGR01312 398577008086 nucleotide binding site [chemical binding]; other site 398577008087 xanthine permease; Region: pbuX; TIGR03173 398577008088 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398577008089 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 398577008090 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 398577008091 Protein export membrane protein; Region: SecD_SecF; cl14618 398577008092 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 398577008093 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577008094 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577008095 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 398577008096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577008097 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 398577008098 Isochorismatase family; Region: Isochorismatase; pfam00857 398577008099 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 398577008100 catalytic triad [active] 398577008101 conserved cis-peptide bond; other site 398577008102 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 398577008103 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398577008104 conserved cys residue [active] 398577008105 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577008106 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577008107 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398577008108 hydrophobic ligand binding site; other site 398577008109 Domain of unknown function (DUF427); Region: DUF427; pfam04248 398577008110 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398577008111 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 398577008112 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398577008113 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 398577008114 protein binding site [polypeptide binding]; other site 398577008115 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 398577008116 protein binding site [polypeptide binding]; other site 398577008117 sensor protein QseC; Provisional; Region: PRK10337 398577008118 HAMP domain; Region: HAMP; pfam00672 398577008119 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 398577008120 dimer interface [polypeptide binding]; other site 398577008121 phosphorylation site [posttranslational modification] 398577008122 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 398577008123 ATP binding site [chemical binding]; other site 398577008124 Mg2+ binding site [ion binding]; other site 398577008125 G-X-G motif; other site 398577008126 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 398577008127 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 398577008128 active site 398577008129 phosphorylation site [posttranslational modification] 398577008130 intermolecular recognition site; other site 398577008131 dimerization interface [polypeptide binding]; other site 398577008132 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 398577008133 DNA binding site [nucleotide binding] 398577008134 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 398577008135 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 398577008136 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 398577008137 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 398577008138 active site 398577008139 catalytic triad [active] 398577008140 oxyanion hole [active] 398577008141 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 398577008142 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 398577008143 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 398577008144 ATP-grasp domain; Region: ATP-grasp; pfam02222 398577008145 AIR carboxylase; Region: AIRC; cl00310 398577008146 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 398577008147 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 398577008148 ATP binding site [chemical binding]; other site 398577008149 active site 398577008150 substrate binding site [chemical binding]; other site 398577008151 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 398577008152 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 398577008153 intersubunit interface [polypeptide binding]; other site 398577008154 active site 398577008155 zinc binding site [ion binding]; other site 398577008156 Na+ binding site [ion binding]; other site 398577008157 pyruvate kinase; Provisional; Region: PRK05826 398577008158 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 398577008159 domain interfaces; other site 398577008160 active site 398577008161 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 398577008162 Phosphoglycerate kinase; Region: PGK; pfam00162 398577008163 substrate binding site [chemical binding]; other site 398577008164 hinge regions; other site 398577008165 ADP binding site [chemical binding]; other site 398577008166 catalytic site [active] 398577008167 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 398577008168 AzlC protein; Region: AzlC; pfam03591 398577008169 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398577008170 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 398577008171 homodimer interface [polypeptide binding]; other site 398577008172 substrate-cofactor binding pocket; other site 398577008173 catalytic residue [active] 398577008174 Zinc-finger domain; Region: zf-CHCC; cl01821 398577008175 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398577008176 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 398577008177 putative active site [active] 398577008178 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 398577008179 SnoaL-like domain; Region: SnoaL_3; pfam13474 398577008180 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 398577008181 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 398577008182 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 398577008183 Peptidase family M48; Region: Peptidase_M48; pfam01435 398577008184 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 398577008185 trimer interface [polypeptide binding]; other site 398577008186 dimer interface [polypeptide binding]; other site 398577008187 putative active site [active] 398577008188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577008189 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577008190 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577008191 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577008192 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577008193 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 398577008194 Ycf48-like protein; Provisional; Region: PRK13684 398577008195 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 398577008196 O-Antigen ligase; Region: Wzy_C; pfam04932 398577008197 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 398577008198 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 398577008199 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 398577008200 Pilin (bacterial filament); Region: Pilin; pfam00114 398577008201 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 398577008202 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 398577008203 CoA binding domain; Region: CoA_binding; smart00881 398577008204 CoA-ligase; Region: Ligase_CoA; pfam00549 398577008205 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 398577008206 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 398577008207 CoA-ligase; Region: Ligase_CoA; pfam00549 398577008208 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 398577008209 recombination regulator RecX; Provisional; Region: recX; PRK14136 398577008210 recombinase A; Provisional; Region: recA; PRK09354 398577008211 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 398577008212 hexamer interface [polypeptide binding]; other site 398577008213 Walker A motif; other site 398577008214 ATP binding site [chemical binding]; other site 398577008215 Walker B motif; other site 398577008216 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577008217 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 398577008218 active site 398577008219 phosphorylation site [posttranslational modification] 398577008220 intermolecular recognition site; other site 398577008221 dimerization interface [polypeptide binding]; other site 398577008222 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 398577008223 DNA binding site [nucleotide binding] 398577008224 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398577008225 HAMP domain; Region: HAMP; pfam00672 398577008226 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 398577008227 dimer interface [polypeptide binding]; other site 398577008228 phosphorylation site [posttranslational modification] 398577008229 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 398577008230 ATP binding site [chemical binding]; other site 398577008231 Mg2+ binding site [ion binding]; other site 398577008232 G-X-G motif; other site 398577008233 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577008234 putative substrate translocation pore; other site 398577008235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577008236 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577008237 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 398577008238 putative effector binding pocket; other site 398577008239 putative dimerization interface [polypeptide binding]; other site 398577008240 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577008241 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398577008242 conserved cys residue [active] 398577008243 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577008244 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398577008245 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 398577008246 conserved cys residue [active] 398577008247 Cupin domain; Region: Cupin_2; cl17218 398577008248 PAAR motif; Region: PAAR_motif; pfam05488 398577008249 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577008250 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 398577008251 trimer interface [polypeptide binding]; other site 398577008252 eyelet of channel; other site 398577008253 amidase; Provisional; Region: PRK07486 398577008254 Amidase; Region: Amidase; pfam01425 398577008255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577008256 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577008257 putative substrate translocation pore; other site 398577008258 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398577008259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577008260 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 398577008261 dimerization interface [polypeptide binding]; other site 398577008262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577008263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577008264 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 398577008265 putative effector binding pocket; other site 398577008266 dimerization interface [polypeptide binding]; other site 398577008267 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 398577008268 Transglycosylase; Region: Transgly; pfam00912 398577008269 Uncharacterized conserved protein [Function unknown]; Region: COG3791 398577008270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 398577008271 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 398577008272 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398577008273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577008274 DNA-binding site [nucleotide binding]; DNA binding site 398577008275 FCD domain; Region: FCD; pfam07729 398577008276 galactonate dehydratase; Provisional; Region: PRK14017 398577008277 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 398577008278 putative active site pocket [active] 398577008279 putative metal binding site [ion binding]; other site 398577008280 Copper resistance protein D; Region: CopD; pfam05425 398577008281 Cytochrome c; Region: Cytochrom_C; cl11414 398577008282 Cytochrome c; Region: Cytochrom_C; cl11414 398577008283 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577008284 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577008285 Cytochrome c; Region: Cytochrom_C; pfam00034 398577008286 helicase 45; Provisional; Region: PTZ00424 398577008287 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 398577008288 ATP binding site [chemical binding]; other site 398577008289 Mg++ binding site [ion binding]; other site 398577008290 motif III; other site 398577008291 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 398577008292 nucleotide binding region [chemical binding]; other site 398577008293 ATP-binding site [chemical binding]; other site 398577008294 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 398577008295 dinuclear metal binding motif [ion binding]; other site 398577008296 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398577008297 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398577008298 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398577008299 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 398577008300 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 398577008301 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 398577008302 glycerol kinase; Provisional; Region: glpK; PRK00047 398577008303 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 398577008304 N- and C-terminal domain interface [polypeptide binding]; other site 398577008305 active site 398577008306 MgATP binding site [chemical binding]; other site 398577008307 catalytic site [active] 398577008308 metal binding site [ion binding]; metal-binding site 398577008309 glycerol binding site [chemical binding]; other site 398577008310 homotetramer interface [polypeptide binding]; other site 398577008311 homodimer interface [polypeptide binding]; other site 398577008312 FBP binding site [chemical binding]; other site 398577008313 protein IIAGlc interface [polypeptide binding]; other site 398577008314 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 398577008315 amphipathic channel; other site 398577008316 Asn-Pro-Ala signature motifs; other site 398577008317 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 398577008318 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 398577008319 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 398577008320 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 398577008321 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577008322 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 398577008323 non-specific DNA binding site [nucleotide binding]; other site 398577008324 salt bridge; other site 398577008325 sequence-specific DNA binding site [nucleotide binding]; other site 398577008326 Cupin domain; Region: Cupin_2; pfam07883 398577008327 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577008328 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577008329 putative substrate translocation pore; other site 398577008330 transcriptional regulator; Provisional; Region: PRK10632 398577008331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577008332 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 398577008333 putative effector binding pocket; other site 398577008334 dimerization interface [polypeptide binding]; other site 398577008335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 398577008336 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 398577008337 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 398577008338 FeS/SAM binding site; other site 398577008339 TRAM domain; Region: TRAM; pfam01938 398577008340 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 398577008341 PhoH-like protein; Region: PhoH; pfam02562 398577008342 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 398577008343 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 398577008344 putative active site pocket [active] 398577008345 dimerization interface [polypeptide binding]; other site 398577008346 putative catalytic residue [active] 398577008347 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 398577008348 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 398577008349 Transporter associated domain; Region: CorC_HlyC; smart01091 398577008350 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 398577008351 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 398577008352 putative active site [active] 398577008353 catalytic triad [active] 398577008354 putative dimer interface [polypeptide binding]; other site 398577008355 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 398577008356 binding surface 398577008357 TPR motif; other site 398577008358 TPR repeat; Region: TPR_11; pfam13414 398577008359 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 398577008360 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 398577008361 dimer interface [polypeptide binding]; other site 398577008362 motif 1; other site 398577008363 active site 398577008364 motif 2; other site 398577008365 motif 3; other site 398577008366 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 398577008367 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 398577008368 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 398577008369 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 398577008370 active site 398577008371 motif I; other site 398577008372 motif II; other site 398577008373 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398577008374 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398577008375 putative acyl-acceptor binding pocket; other site 398577008376 Protein of unknown function DUF45; Region: DUF45; pfam01863 398577008377 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577008378 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 398577008379 dimer interface [polypeptide binding]; other site 398577008380 active site 398577008381 metal binding site [ion binding]; metal-binding site 398577008382 glutathione binding site [chemical binding]; other site 398577008383 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 398577008384 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 398577008385 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 398577008386 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 398577008387 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 398577008388 SurA N-terminal domain; Region: SurA_N; pfam09312 398577008389 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 398577008390 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398577008391 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398577008392 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 398577008393 Organic solvent tolerance protein; Region: OstA_C; pfam04453 398577008394 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 398577008395 Phosphotransferase enzyme family; Region: APH; pfam01636 398577008396 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 398577008397 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 398577008398 Substrate binding site; other site 398577008399 metal-binding site 398577008400 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398577008401 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 398577008402 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 398577008403 Walker A/P-loop; other site 398577008404 ATP binding site [chemical binding]; other site 398577008405 Q-loop/lid; other site 398577008406 ABC transporter signature motif; other site 398577008407 Walker B; other site 398577008408 D-loop; other site 398577008409 H-loop/switch region; other site 398577008410 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 398577008411 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 398577008412 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 398577008413 enoyl-CoA hydratase; Provisional; Region: PRK06688 398577008414 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 398577008415 substrate binding site [chemical binding]; other site 398577008416 oxyanion hole (OAH) forming residues; other site 398577008417 trimer interface [polypeptide binding]; other site 398577008418 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 398577008419 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 398577008420 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 398577008421 dimer interface [polypeptide binding]; other site 398577008422 active site 398577008423 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 398577008424 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398577008425 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577008426 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398577008427 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 398577008428 substrate binding site [chemical binding]; other site 398577008429 oxyanion hole (OAH) forming residues; other site 398577008430 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398577008431 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398577008432 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 398577008433 FAD binding site [chemical binding]; other site 398577008434 substrate binding site [chemical binding]; other site 398577008435 catalytic residues [active] 398577008436 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398577008437 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577008438 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577008439 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 398577008440 PLD-like domain; Region: PLDc_2; pfam13091 398577008441 putative active site [active] 398577008442 catalytic site [active] 398577008443 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 398577008444 PLD-like domain; Region: PLDc_2; pfam13091 398577008445 putative active site [active] 398577008446 catalytic site [active] 398577008447 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 398577008448 nudix motif; other site 398577008449 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 398577008450 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 398577008451 dimer interface [polypeptide binding]; other site 398577008452 anticodon binding site; other site 398577008453 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 398577008454 homodimer interface [polypeptide binding]; other site 398577008455 motif 1; other site 398577008456 active site 398577008457 motif 2; other site 398577008458 GAD domain; Region: GAD; pfam02938 398577008459 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 398577008460 motif 3; other site 398577008461 Uncharacterized conserved protein [Function unknown]; Region: COG2928 398577008462 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 398577008463 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 398577008464 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 398577008465 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 398577008466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 398577008467 SCP-2 sterol transfer family; Region: SCP2; pfam02036 398577008468 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 398577008469 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 398577008470 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 398577008471 S-adenosylmethionine binding site [chemical binding]; other site 398577008472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 398577008473 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 398577008474 nucleotide binding site/active site [active] 398577008475 HIT family signature motif; other site 398577008476 catalytic residue [active] 398577008477 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 398577008478 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398577008479 FAD binding domain; Region: FAD_binding_4; pfam01565 398577008480 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398577008481 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 398577008482 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398577008483 Cysteine-rich domain; Region: CCG; pfam02754 398577008484 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 398577008485 threonine dehydratase; Reviewed; Region: PRK09224 398577008486 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 398577008487 tetramer interface [polypeptide binding]; other site 398577008488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577008489 catalytic residue [active] 398577008490 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 398577008491 putative Ile/Val binding site [chemical binding]; other site 398577008492 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 398577008493 putative Ile/Val binding site [chemical binding]; other site 398577008494 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 398577008495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 398577008496 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 398577008497 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 398577008498 homotrimer interaction site [polypeptide binding]; other site 398577008499 putative active site [active] 398577008500 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 398577008501 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 398577008502 active site 398577008503 putative substrate binding pocket [chemical binding]; other site 398577008504 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398577008505 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398577008506 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 398577008507 putative active site [active] 398577008508 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 398577008509 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 398577008510 dimer interface [polypeptide binding]; other site 398577008511 active site 398577008512 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398577008513 substrate binding site [chemical binding]; other site 398577008514 catalytic residue [active] 398577008515 intracellular protease, PfpI family; Region: PfpI; TIGR01382 398577008516 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 398577008517 conserved cys residue [active] 398577008518 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398577008519 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 398577008520 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577008521 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577008522 putative substrate translocation pore; other site 398577008523 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577008524 EcsC protein family; Region: EcsC; pfam12787 398577008525 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 398577008526 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398577008527 CHRD domain; Region: CHRD; pfam07452 398577008528 aldolase II superfamily protein; Provisional; Region: PRK07044 398577008529 intersubunit interface [polypeptide binding]; other site 398577008530 active site 398577008531 Zn2+ binding site [ion binding]; other site 398577008532 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398577008533 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 398577008534 putative active site [active] 398577008535 catalytic site [active] 398577008536 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 398577008537 putative active site [active] 398577008538 catalytic site [active] 398577008539 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398577008540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577008541 DNA-binding site [nucleotide binding]; DNA binding site 398577008542 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398577008543 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398577008544 Cysteine-rich domain; Region: CCG; pfam02754 398577008545 Cysteine-rich domain; Region: CCG; pfam02754 398577008546 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 398577008547 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 398577008548 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 398577008549 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 398577008550 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 398577008551 L-lactate permease; Region: Lactate_perm; cl00701 398577008552 glycolate transporter; Provisional; Region: PRK09695 398577008553 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 398577008554 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398577008555 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 398577008556 Ligand binding site; other site 398577008557 Putative Catalytic site; other site 398577008558 DXD motif; other site 398577008559 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_5; cd06153 398577008560 homotrimer interaction site [polypeptide binding]; other site 398577008561 putative active site [active] 398577008562 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577008563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577008564 NAD(P) binding site [chemical binding]; other site 398577008565 active site 398577008566 acyl carrier protein; Provisional; Region: PRK09184 398577008567 Predicted membrane protein [Function unknown]; Region: COG4648 398577008568 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398577008569 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398577008570 acyl-activating enzyme (AAE) consensus motif; other site 398577008571 AMP binding site [chemical binding]; other site 398577008572 active site 398577008573 CoA binding site [chemical binding]; other site 398577008574 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 398577008575 active site 2 [active] 398577008576 dimer interface [polypeptide binding]; other site 398577008577 active site 1 [active] 398577008578 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 398577008579 putative acyl-acceptor binding pocket; other site 398577008580 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 398577008581 Predicted exporter [General function prediction only]; Region: COG4258 398577008582 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 398577008583 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 398577008584 NodB motif; other site 398577008585 active site 398577008586 catalytic site [active] 398577008587 metal binding site [ion binding]; metal-binding site 398577008588 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 398577008589 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 398577008590 dimer interface [polypeptide binding]; other site 398577008591 active site 398577008592 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 398577008593 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 398577008594 putative active site 1 [active] 398577008595 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 398577008596 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398577008597 NAD(P) binding site [chemical binding]; other site 398577008598 homotetramer interface [polypeptide binding]; other site 398577008599 homodimer interface [polypeptide binding]; other site 398577008600 active site 398577008601 putative acyltransferase; Provisional; Region: PRK05790 398577008602 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 398577008603 dimer interface [polypeptide binding]; other site 398577008604 active site 398577008605 Phasin protein; Region: Phasin_2; pfam09361 398577008606 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398577008607 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 398577008608 P-loop; other site 398577008609 Magnesium ion binding site [ion binding]; other site 398577008610 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 398577008611 Magnesium ion binding site [ion binding]; other site 398577008612 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398577008613 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 398577008614 dimer interface [polypeptide binding]; other site 398577008615 ssDNA binding site [nucleotide binding]; other site 398577008616 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398577008617 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577008618 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577008619 putative substrate translocation pore; other site 398577008620 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 398577008621 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398577008622 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398577008623 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 398577008624 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398577008625 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 398577008626 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 398577008627 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 398577008628 putative active site [active] 398577008629 putative substrate binding site [chemical binding]; other site 398577008630 putative cosubstrate binding site; other site 398577008631 catalytic site [active] 398577008632 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 398577008633 nudix motif; other site 398577008634 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577008635 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398577008636 active site 398577008637 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398577008638 TrkA-N domain; Region: TrkA_N; pfam02254 398577008639 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 398577008640 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 398577008641 putative active site [active] 398577008642 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 398577008643 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 398577008644 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 398577008645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 398577008646 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 398577008647 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 398577008648 OstA-like protein; Region: OstA; pfam03968 398577008649 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 398577008650 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 398577008651 Walker A/P-loop; other site 398577008652 ATP binding site [chemical binding]; other site 398577008653 Q-loop/lid; other site 398577008654 ABC transporter signature motif; other site 398577008655 Walker B; other site 398577008656 D-loop; other site 398577008657 H-loop/switch region; other site 398577008658 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 398577008659 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 398577008660 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 398577008661 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 398577008662 30S subunit binding site; other site 398577008663 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 398577008664 active site 398577008665 phosphorylation site [posttranslational modification] 398577008666 HPr kinase/phosphorylase; Provisional; Region: PRK05428 398577008667 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 398577008668 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 398577008669 Hpr binding site; other site 398577008670 active site 398577008671 homohexamer subunit interaction site [polypeptide binding]; other site 398577008672 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 398577008673 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 398577008674 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 398577008675 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398577008676 minor groove reading motif; other site 398577008677 helix-hairpin-helix signature motif; other site 398577008678 substrate binding pocket [chemical binding]; other site 398577008679 active site 398577008680 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 398577008681 DNA binding and oxoG recognition site [nucleotide binding] 398577008682 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 398577008683 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 398577008684 DNA binding site [nucleotide binding] 398577008685 catalytic residue [active] 398577008686 H2TH interface [polypeptide binding]; other site 398577008687 putative catalytic residues [active] 398577008688 turnover-facilitating residue; other site 398577008689 intercalation triad [nucleotide binding]; other site 398577008690 8OG recognition residue [nucleotide binding]; other site 398577008691 putative reading head residues; other site 398577008692 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 398577008693 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 398577008694 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 398577008695 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 398577008696 binding surface 398577008697 TPR motif; other site 398577008698 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 398577008699 binding surface 398577008700 TPR motif; other site 398577008701 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 398577008702 binding surface 398577008703 TPR motif; other site 398577008704 TPR repeat; Region: TPR_11; pfam13414 398577008705 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 398577008706 binding surface 398577008707 TPR motif; other site 398577008708 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 398577008709 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 398577008710 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 398577008711 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 398577008712 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 398577008713 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 398577008714 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 398577008715 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398577008716 active site 398577008717 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 398577008718 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 398577008719 5S rRNA interface [nucleotide binding]; other site 398577008720 CTC domain interface [polypeptide binding]; other site 398577008721 L16 interface [polypeptide binding]; other site 398577008722 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 398577008723 putative active site [active] 398577008724 catalytic residue [active] 398577008725 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 398577008726 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 398577008727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577008728 homodimer interface [polypeptide binding]; other site 398577008729 catalytic residue [active] 398577008730 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 398577008731 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 398577008732 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 398577008733 active site 398577008734 (T/H)XGH motif; other site 398577008735 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 398577008736 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 398577008737 S-adenosylmethionine binding site [chemical binding]; other site 398577008738 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 398577008739 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 398577008740 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 398577008741 P loop; other site 398577008742 GTP binding site [chemical binding]; other site 398577008743 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 398577008744 maleylacetoacetate isomerase; Region: maiA; TIGR01262 398577008745 C-terminal domain interface [polypeptide binding]; other site 398577008746 GSH binding site (G-site) [chemical binding]; other site 398577008747 putative dimer interface [polypeptide binding]; other site 398577008748 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 398577008749 dimer interface [polypeptide binding]; other site 398577008750 N-terminal domain interface [polypeptide binding]; other site 398577008751 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 398577008752 glycosyl transferase family protein; Provisional; Region: PRK08136 398577008753 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 398577008754 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 398577008755 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 398577008756 active site 398577008757 catalytic residues [active] 398577008758 metal binding site [ion binding]; metal-binding site 398577008759 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 398577008760 SnoaL-like domain; Region: SnoaL_3; pfam13474 398577008761 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 398577008762 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 398577008763 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398577008764 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577008765 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 398577008766 DNA binding residues [nucleotide binding] 398577008767 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 398577008768 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 398577008769 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398577008770 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398577008771 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 398577008772 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 398577008773 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 398577008774 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 398577008775 active site 398577008776 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 398577008777 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 398577008778 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 398577008779 active site turn [active] 398577008780 phosphorylation site [posttranslational modification] 398577008781 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 398577008782 HPr interaction site; other site 398577008783 glycerol kinase (GK) interaction site [polypeptide binding]; other site 398577008784 active site 398577008785 phosphorylation site [posttranslational modification] 398577008786 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 398577008787 dimerization domain swap beta strand [polypeptide binding]; other site 398577008788 regulatory protein interface [polypeptide binding]; other site 398577008789 active site 398577008790 regulatory phosphorylation site [posttranslational modification]; other site 398577008791 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 398577008792 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398577008793 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398577008794 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398577008795 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 398577008796 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 398577008797 dimer interface [polypeptide binding]; other site 398577008798 active site 398577008799 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 398577008800 dimer interface [polypeptide binding]; other site 398577008801 active site 398577008802 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 398577008803 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 398577008804 active site 398577008805 dimer interface [polypeptide binding]; other site 398577008806 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398577008807 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577008808 DNA-binding site [nucleotide binding]; DNA binding site 398577008809 UTRA domain; Region: UTRA; pfam07702 398577008810 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 398577008811 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 398577008812 putative active site [active] 398577008813 putative PHP Thumb interface [polypeptide binding]; other site 398577008814 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 398577008815 generic binding surface II; other site 398577008816 generic binding surface I; other site 398577008817 DNA Polymerase Y-family; Region: PolY_like; cd03468 398577008818 active site 398577008819 DNA binding site [nucleotide binding] 398577008820 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 398577008821 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 398577008822 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398577008823 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 398577008824 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 398577008825 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577008826 dimer interface [polypeptide binding]; other site 398577008827 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 398577008828 putative CheW interface [polypeptide binding]; other site 398577008829 YCII-related domain; Region: YCII; cl00999 398577008830 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 398577008831 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577008832 Cu(I) binding site [ion binding]; other site 398577008833 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 398577008834 UbiA prenyltransferase family; Region: UbiA; pfam01040 398577008835 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 398577008836 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 398577008837 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398577008838 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 398577008839 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 398577008840 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 398577008841 Subunit III/VIIa interface [polypeptide binding]; other site 398577008842 Phospholipid binding site [chemical binding]; other site 398577008843 Subunit I/III interface [polypeptide binding]; other site 398577008844 Subunit III/VIb interface [polypeptide binding]; other site 398577008845 Subunit III/VIa interface; other site 398577008846 Subunit III/Vb interface [polypeptide binding]; other site 398577008847 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 398577008848 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 398577008849 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398577008850 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 398577008851 Subunit I/III interface [polypeptide binding]; other site 398577008852 D-pathway; other site 398577008853 Subunit I/VIIc interface [polypeptide binding]; other site 398577008854 Subunit I/IV interface [polypeptide binding]; other site 398577008855 Subunit I/II interface [polypeptide binding]; other site 398577008856 Low-spin heme (heme a) binding site [chemical binding]; other site 398577008857 Subunit I/VIIa interface [polypeptide binding]; other site 398577008858 Subunit I/VIa interface [polypeptide binding]; other site 398577008859 Dimer interface; other site 398577008860 Putative water exit pathway; other site 398577008861 Binuclear center (heme a3/CuB) [ion binding]; other site 398577008862 K-pathway; other site 398577008863 Subunit I/Vb interface [polypeptide binding]; other site 398577008864 Putative proton exit pathway; other site 398577008865 Subunit I/VIb interface; other site 398577008866 Subunit I/VIc interface [polypeptide binding]; other site 398577008867 Electron transfer pathway; other site 398577008868 Subunit I/VIIIb interface [polypeptide binding]; other site 398577008869 Subunit I/VIIb interface [polypeptide binding]; other site 398577008870 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 398577008871 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 398577008872 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 398577008873 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577008874 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398577008875 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577008876 ligand binding site [chemical binding]; other site 398577008877 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 398577008878 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 398577008879 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 398577008880 S-adenosylmethionine binding site [chemical binding]; other site 398577008881 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 398577008882 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 398577008883 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 398577008884 putative ADP-ribose binding site [chemical binding]; other site 398577008885 putative active site [active] 398577008886 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 398577008887 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398577008888 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 398577008889 preprotein translocase subunit SecB; Validated; Region: PRK05751 398577008890 SecA binding site; other site 398577008891 Preprotein binding site; other site 398577008892 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 398577008893 GSH binding site [chemical binding]; other site 398577008894 catalytic residues [active] 398577008895 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 398577008896 active site residue [active] 398577008897 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 398577008898 catalytic core [active] 398577008899 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 398577008900 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 398577008901 C-terminal peptidase (prc); Region: prc; TIGR00225 398577008902 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 398577008903 protein binding site [polypeptide binding]; other site 398577008904 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 398577008905 Catalytic dyad [active] 398577008906 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 398577008907 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 398577008908 ATP binding site [chemical binding]; other site 398577008909 substrate interface [chemical binding]; other site 398577008910 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 398577008911 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 398577008912 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 398577008913 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 398577008914 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 398577008915 dimerization domain swap beta strand [polypeptide binding]; other site 398577008916 regulatory protein interface [polypeptide binding]; other site 398577008917 active site 398577008918 regulatory phosphorylation site [posttranslational modification]; other site 398577008919 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 398577008920 active pocket/dimerization site; other site 398577008921 active site 398577008922 phosphorylation site [posttranslational modification] 398577008923 glutathione synthetase; Provisional; Region: PRK05246 398577008924 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 398577008925 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 398577008926 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 398577008927 Glutamate-cysteine ligase; Region: GshA; pfam08886 398577008928 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 398577008929 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 398577008930 Nitrogen regulatory protein P-II; Region: P-II; smart00938 398577008931 Membrane fusogenic activity; Region: BMFP; pfam04380 398577008932 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 398577008933 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 398577008934 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 398577008935 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 398577008936 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 398577008937 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577008938 catalytic residues [active] 398577008939 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398577008940 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 398577008941 active site 398577008942 phosphorylation site [posttranslational modification] 398577008943 intermolecular recognition site; other site 398577008944 dimerization interface [polypeptide binding]; other site 398577008945 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 398577008946 Walker A motif; other site 398577008947 ATP binding site [chemical binding]; other site 398577008948 Walker B motif; other site 398577008949 arginine finger; other site 398577008950 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577008951 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 398577008952 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 398577008953 dimer interface [polypeptide binding]; other site 398577008954 phosphorylation site [posttranslational modification] 398577008955 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 398577008956 ATP binding site [chemical binding]; other site 398577008957 Mg2+ binding site [ion binding]; other site 398577008958 G-X-G motif; other site 398577008959 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 398577008960 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577008961 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 398577008962 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 398577008963 Na binding site [ion binding]; other site 398577008964 Protein of unknown function, DUF485; Region: DUF485; pfam04341 398577008965 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577008966 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577008967 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 398577008968 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398577008969 active site 398577008970 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 398577008971 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577008972 active site 398577008973 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 398577008974 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 398577008975 substrate binding site [chemical binding]; other site 398577008976 oxyanion hole (OAH) forming residues; other site 398577008977 trimer interface [polypeptide binding]; other site 398577008978 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398577008979 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577008980 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577008981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577008982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577008983 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 398577008984 putative effector binding pocket; other site 398577008985 dimerization interface [polypeptide binding]; other site 398577008986 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398577008987 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398577008988 lipoyl synthase; Provisional; Region: PRK05481 398577008989 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 398577008990 FeS/SAM binding site; other site 398577008991 lipoate-protein ligase B; Provisional; Region: PRK14343 398577008992 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 398577008993 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577008994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577008995 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 398577008996 dimerization interface [polypeptide binding]; other site 398577008997 substrate binding pocket [chemical binding]; other site 398577008998 hypothetical protein; Provisional; Region: PRK02047 398577008999 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 398577009000 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 398577009001 homodimer interface [polypeptide binding]; other site 398577009002 substrate-cofactor binding pocket; other site 398577009003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577009004 catalytic residue [active] 398577009005 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 398577009006 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398577009007 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 398577009008 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 398577009009 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 398577009010 dimer interface [polypeptide binding]; other site 398577009011 [2Fe-2S] cluster binding site [ion binding]; other site 398577009012 Protein of unknown function (DUF330); Region: DUF330; pfam03886 398577009013 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 398577009014 mce related protein; Region: MCE; pfam02470 398577009015 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 398577009016 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 398577009017 Walker A/P-loop; other site 398577009018 ATP binding site [chemical binding]; other site 398577009019 Q-loop/lid; other site 398577009020 ABC transporter signature motif; other site 398577009021 Walker B; other site 398577009022 D-loop; other site 398577009023 H-loop/switch region; other site 398577009024 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 398577009025 Permease; Region: Permease; pfam02405 398577009026 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 398577009027 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 398577009028 active site 398577009029 metal binding site [ion binding]; metal-binding site 398577009030 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 398577009031 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398577009032 Sel1-like repeats; Region: SEL1; smart00671 398577009033 biotin--protein ligase; Provisional; Region: PRK06955 398577009034 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 398577009035 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 398577009036 pantothenate kinase; Reviewed; Region: PRK13328 398577009037 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 398577009038 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 398577009039 active site 398577009040 nucleotide binding site [chemical binding]; other site 398577009041 HIGH motif; other site 398577009042 KMSKS motif; other site 398577009043 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 398577009044 dinuclear metal binding motif [ion binding]; other site 398577009045 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398577009046 active site 398577009047 nucleophile elbow; other site 398577009048 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398577009049 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 398577009050 substrate binding site [chemical binding]; other site 398577009051 oxyanion hole (OAH) forming residues; other site 398577009052 trimer interface [polypeptide binding]; other site 398577009053 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 398577009054 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 398577009055 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577009056 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577009057 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577009058 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 398577009059 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 398577009060 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 398577009061 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 398577009062 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 398577009063 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 398577009064 substrate binding pocket [chemical binding]; other site 398577009065 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 398577009066 B12 binding site [chemical binding]; other site 398577009067 cobalt ligand [ion binding]; other site 398577009068 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 398577009069 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 398577009070 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 398577009071 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 398577009072 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 398577009073 active site 398577009074 HIGH motif; other site 398577009075 KMSK motif region; other site 398577009076 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 398577009077 tRNA binding surface [nucleotide binding]; other site 398577009078 anticodon binding site; other site 398577009079 Sporulation related domain; Region: SPOR; pfam05036 398577009080 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 398577009081 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398577009082 catalytic residues [active] 398577009083 hinge region; other site 398577009084 alpha helical domain; other site 398577009085 short chain dehydrogenase; Provisional; Region: PRK07024 398577009086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577009087 NAD(P) binding site [chemical binding]; other site 398577009088 active site 398577009089 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398577009090 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 398577009091 peptide binding site [polypeptide binding]; other site 398577009092 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 398577009093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577009094 Walker A/P-loop; other site 398577009095 ATP binding site [chemical binding]; other site 398577009096 Q-loop/lid; other site 398577009097 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398577009098 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 398577009099 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 398577009100 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 398577009101 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 398577009102 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 398577009103 active site clefts [active] 398577009104 zinc binding site [ion binding]; other site 398577009105 dimer interface [polypeptide binding]; other site 398577009106 short chain dehydrogenase; Provisional; Region: PRK08219 398577009107 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 398577009108 NADP binding site [chemical binding]; other site 398577009109 homodimer interface [polypeptide binding]; other site 398577009110 active site 398577009111 hypothetical protein; Provisional; Region: PRK01842 398577009112 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398577009113 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577009114 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 398577009115 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 398577009116 inhibitor-cofactor binding pocket; inhibition site 398577009117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577009118 catalytic residue [active] 398577009119 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 398577009120 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 398577009121 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577009122 catalytic residue [active] 398577009123 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 398577009124 AAA domain; Region: AAA_26; pfam13500 398577009125 biotin synthase; Region: bioB; TIGR00433 398577009126 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 398577009127 FeS/SAM binding site; other site 398577009128 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 398577009129 CutC family; Region: CutC; cl01218 398577009130 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 398577009131 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 398577009132 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 398577009133 beta-galactosidase; Region: BGL; TIGR03356 398577009134 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 398577009135 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 398577009136 dimer interface [polypeptide binding]; other site 398577009137 PYR/PP interface [polypeptide binding]; other site 398577009138 TPP binding site [chemical binding]; other site 398577009139 substrate binding site [chemical binding]; other site 398577009140 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 398577009141 TPP-binding site; other site 398577009142 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 398577009143 maltose O-acetyltransferase; Provisional; Region: PRK10092 398577009144 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 398577009145 active site 398577009146 substrate binding site [chemical binding]; other site 398577009147 trimer interface [polypeptide binding]; other site 398577009148 CoA binding site [chemical binding]; other site 398577009149 glutathionine S-transferase; Provisional; Region: PRK10542 398577009150 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 398577009151 putative C-terminal domain interface [polypeptide binding]; other site 398577009152 putative GSH binding site (G-site) [chemical binding]; other site 398577009153 putative dimer interface [polypeptide binding]; other site 398577009154 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 398577009155 dimer interface [polypeptide binding]; other site 398577009156 N-terminal domain interface [polypeptide binding]; other site 398577009157 putative substrate binding pocket (H-site) [chemical binding]; other site 398577009158 Inward rectifier potassium channel; Region: IRK; pfam01007 398577009159 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 398577009160 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398577009161 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398577009162 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 398577009163 dimer interface [polypeptide binding]; other site 398577009164 active site 398577009165 catalytic residue [active] 398577009166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577009167 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 398577009168 dimerization interface [polypeptide binding]; other site 398577009169 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398577009170 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577009171 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 398577009172 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 398577009173 N-terminal plug; other site 398577009174 ligand-binding site [chemical binding]; other site 398577009175 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 398577009176 C-terminal domain interface [polypeptide binding]; other site 398577009177 GSH binding site (G-site) [chemical binding]; other site 398577009178 dimer interface [polypeptide binding]; other site 398577009179 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398577009180 N-terminal domain interface [polypeptide binding]; other site 398577009181 dimer interface [polypeptide binding]; other site 398577009182 substrate binding pocket (H-site) [chemical binding]; other site 398577009183 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577009184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577009185 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 398577009186 dimerization interface [polypeptide binding]; other site 398577009187 substrate binding pocket [chemical binding]; other site 398577009188 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398577009189 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398577009190 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577009191 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 398577009192 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 398577009193 xanthine dehydrogenase E subunit; Region: pucE; TIGR03198 398577009194 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 398577009195 catalytic loop [active] 398577009196 iron binding site [ion binding]; other site 398577009197 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577009198 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 398577009199 Phosphoesterase family; Region: Phosphoesterase; pfam04185 398577009200 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398577009201 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398577009202 Serine hydrolase; Region: Ser_hydrolase; pfam06821 398577009203 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577009204 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 398577009205 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577009206 putative metal binding site [ion binding]; other site 398577009207 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 398577009208 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 398577009209 putative ligand binding site [chemical binding]; other site 398577009210 NAD binding site [chemical binding]; other site 398577009211 dimerization interface [polypeptide binding]; other site 398577009212 catalytic site [active] 398577009213 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 398577009214 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398577009215 active site 398577009216 catalytic residues [active] 398577009217 metal binding site [ion binding]; metal-binding site 398577009218 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 398577009219 putative deacylase active site [active] 398577009220 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 398577009221 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398577009222 EamA-like transporter family; Region: EamA; pfam00892 398577009223 EamA-like transporter family; Region: EamA; pfam00892 398577009224 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577009225 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 398577009226 dimerization interface [polypeptide binding]; other site 398577009227 putative DNA binding site [nucleotide binding]; other site 398577009228 putative Zn2+ binding site [ion binding]; other site 398577009229 AsnC family; Region: AsnC_trans_reg; pfam01037 398577009230 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577009231 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 398577009232 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 398577009233 FMN binding site [chemical binding]; other site 398577009234 substrate binding site [chemical binding]; other site 398577009235 putative catalytic residue [active] 398577009236 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577009237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577009238 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 398577009239 putative effector binding pocket; other site 398577009240 dimerization interface [polypeptide binding]; other site 398577009241 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577009242 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 398577009243 eyelet of channel; other site 398577009244 trimer interface [polypeptide binding]; other site 398577009245 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 398577009246 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 398577009247 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 398577009248 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 398577009249 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577009250 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577009251 metal binding site [ion binding]; metal-binding site 398577009252 active site 398577009253 I-site; other site 398577009254 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577009255 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577009256 DNA binding site [nucleotide binding] 398577009257 domain linker motif; other site 398577009258 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 398577009259 ligand binding site [chemical binding]; other site 398577009260 dimerization interface [polypeptide binding]; other site 398577009261 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 398577009262 dimerization interface [polypeptide binding]; other site 398577009263 putative active cleft [active] 398577009264 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 398577009265 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 398577009266 putative substrate binding site [chemical binding]; other site 398577009267 putative ATP binding site [chemical binding]; other site 398577009268 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 398577009269 Uncharacterized conserved protein [Function unknown]; Region: COG1565 398577009270 Dihydroneopterin aldolase; Region: FolB; pfam02152 398577009271 active site 398577009272 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 398577009273 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 398577009274 Ligand Binding Site [chemical binding]; other site 398577009275 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 398577009276 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 398577009277 Substrate binding site; other site 398577009278 Mg++ binding site; other site 398577009279 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 398577009280 active site 398577009281 substrate binding site [chemical binding]; other site 398577009282 CoA binding site [chemical binding]; other site 398577009283 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398577009284 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 398577009285 glutaminase active site [active] 398577009286 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 398577009287 dimer interface [polypeptide binding]; other site 398577009288 active site 398577009289 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 398577009290 dimer interface [polypeptide binding]; other site 398577009291 active site 398577009292 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 398577009293 Predicted transcriptional regulator [Transcription]; Region: COG2944 398577009294 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 398577009295 non-specific DNA binding site [nucleotide binding]; other site 398577009296 salt bridge; other site 398577009297 sequence-specific DNA binding site [nucleotide binding]; other site 398577009298 Iron permease FTR1 family; Region: FTR1; cl00475 398577009299 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 398577009300 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 398577009301 metal-binding site [ion binding] 398577009302 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 398577009303 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 398577009304 NAD(P) binding site [chemical binding]; other site 398577009305 catalytic residues [active] 398577009306 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 398577009307 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 398577009308 non-specific DNA binding site [nucleotide binding]; other site 398577009309 salt bridge; other site 398577009310 sequence-specific DNA binding site [nucleotide binding]; other site 398577009311 Cupin domain; Region: Cupin_2; pfam07883 398577009312 Peptidase C26; Region: Peptidase_C26; pfam07722 398577009313 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 398577009314 catalytic triad [active] 398577009315 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 398577009316 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398577009317 putative aminotransferase; Validated; Region: PRK07480 398577009318 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 398577009319 inhibitor-cofactor binding pocket; inhibition site 398577009320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577009321 catalytic residue [active] 398577009322 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 398577009323 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398577009324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577009325 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 398577009326 Walker A/P-loop; other site 398577009327 ATP binding site [chemical binding]; other site 398577009328 Q-loop/lid; other site 398577009329 ABC transporter signature motif; other site 398577009330 Walker B; other site 398577009331 D-loop; other site 398577009332 H-loop/switch region; other site 398577009333 TOBE domain; Region: TOBE_2; pfam08402 398577009334 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 398577009335 dimer interface [polypeptide binding]; other site 398577009336 conserved gate region; other site 398577009337 putative PBP binding loops; other site 398577009338 ABC-ATPase subunit interface; other site 398577009339 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398577009340 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 398577009341 dimer interface [polypeptide binding]; other site 398577009342 conserved gate region; other site 398577009343 putative PBP binding loops; other site 398577009344 ABC-ATPase subunit interface; other site 398577009345 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 398577009346 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 398577009347 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577009348 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 398577009349 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577009350 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577009351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 398577009352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 398577009353 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 398577009354 glutathione reductase; Validated; Region: PRK06116 398577009355 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577009356 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577009357 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398577009358 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577009359 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 398577009360 trimer interface [polypeptide binding]; other site 398577009361 eyelet of channel; other site 398577009362 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 398577009363 Chromate transporter; Region: Chromate_transp; pfam02417 398577009364 Chromate transporter; Region: Chromate_transp; pfam02417 398577009365 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577009366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577009367 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 398577009368 dimerization interface [polypeptide binding]; other site 398577009369 substrate binding pocket [chemical binding]; other site 398577009370 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 398577009371 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 398577009372 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 398577009373 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 398577009374 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398577009375 Flagellar regulator YcgR; Region: YcgR; pfam07317 398577009376 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 398577009377 PilZ domain; Region: PilZ; pfam07238 398577009378 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 398577009379 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 398577009380 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 398577009381 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 398577009382 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 398577009383 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 398577009384 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 398577009385 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 398577009386 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398577009387 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398577009388 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 398577009389 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398577009390 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 398577009391 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 398577009392 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398577009393 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 398577009394 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398577009395 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 398577009396 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 398577009397 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 398577009398 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 398577009399 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 398577009400 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 398577009401 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 398577009402 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 398577009403 SAF-like; Region: SAF_2; pfam13144 398577009404 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398577009405 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 398577009406 FlgN protein; Region: FlgN; pfam05130 398577009407 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398577009408 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 398577009409 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 398577009410 active site 398577009411 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 398577009412 sequence-specific DNA binding site [nucleotide binding]; other site 398577009413 salt bridge; other site 398577009414 Cupin domain; Region: Cupin_2; pfam07883 398577009415 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 398577009416 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 398577009417 active site 398577009418 NTP binding site [chemical binding]; other site 398577009419 metal binding triad [ion binding]; metal-binding site 398577009420 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 398577009421 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 398577009422 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577009423 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 398577009424 putative C-terminal domain interface [polypeptide binding]; other site 398577009425 putative GSH binding site (G-site) [chemical binding]; other site 398577009426 putative dimer interface [polypeptide binding]; other site 398577009427 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 398577009428 putative N-terminal domain interface [polypeptide binding]; other site 398577009429 putative dimer interface [polypeptide binding]; other site 398577009430 putative substrate binding pocket (H-site) [chemical binding]; other site 398577009431 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 398577009432 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 398577009433 putative NAD(P) binding site [chemical binding]; other site 398577009434 active site 398577009435 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398577009436 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 398577009437 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577009438 catalytic residue [active] 398577009439 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 398577009440 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 398577009441 MarR family; Region: MarR_2; cl17246 398577009442 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577009443 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 398577009444 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 398577009445 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 398577009446 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 398577009447 putative active site [active] 398577009448 TraB family; Region: TraB; pfam01963 398577009449 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 398577009450 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577009451 Walker A/P-loop; other site 398577009452 ATP binding site [chemical binding]; other site 398577009453 Q-loop/lid; other site 398577009454 ABC transporter signature motif; other site 398577009455 Walker B; other site 398577009456 D-loop; other site 398577009457 H-loop/switch region; other site 398577009458 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 398577009459 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398577009460 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577009461 Walker A/P-loop; other site 398577009462 ATP binding site [chemical binding]; other site 398577009463 Q-loop/lid; other site 398577009464 ABC transporter signature motif; other site 398577009465 Walker B; other site 398577009466 D-loop; other site 398577009467 H-loop/switch region; other site 398577009468 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398577009469 dipeptide transporter; Provisional; Region: PRK10913 398577009470 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 398577009471 dimer interface [polypeptide binding]; other site 398577009472 conserved gate region; other site 398577009473 putative PBP binding loops; other site 398577009474 ABC-ATPase subunit interface; other site 398577009475 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398577009476 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 398577009477 dimer interface [polypeptide binding]; other site 398577009478 conserved gate region; other site 398577009479 putative PBP binding loops; other site 398577009480 ABC-ATPase subunit interface; other site 398577009481 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398577009482 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 398577009483 peptide binding site [polypeptide binding]; other site 398577009484 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577009485 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577009486 putative substrate translocation pore; other site 398577009487 High potential iron-sulfur protein; Region: HIPIP; pfam01355 398577009488 Predicted dehydrogenase [General function prediction only]; Region: COG0579 398577009489 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398577009490 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 398577009491 ATP binding site [chemical binding]; other site 398577009492 Walker B motif; other site 398577009493 arginine finger; other site 398577009494 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 398577009495 putative catalytic site [active] 398577009496 putative phosphate binding site [ion binding]; other site 398577009497 putative metal binding site [ion binding]; other site 398577009498 LysE type translocator; Region: LysE; cl00565 398577009499 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398577009500 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 398577009501 FAD binding pocket [chemical binding]; other site 398577009502 FAD binding motif [chemical binding]; other site 398577009503 phosphate binding motif [ion binding]; other site 398577009504 beta-alpha-beta structure motif; other site 398577009505 NAD binding pocket [chemical binding]; other site 398577009506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398577009507 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 398577009508 ATP binding site [chemical binding]; other site 398577009509 Mg2+ binding site [ion binding]; other site 398577009510 G-X-G motif; other site 398577009511 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577009512 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 398577009513 active site 398577009514 phosphorylation site [posttranslational modification] 398577009515 intermolecular recognition site; other site 398577009516 dimerization interface [polypeptide binding]; other site 398577009517 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 398577009518 DNA binding residues [nucleotide binding] 398577009519 dimerization interface [polypeptide binding]; other site 398577009520 amino acid transporter; Region: 2A0306; TIGR00909 398577009521 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 398577009522 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 398577009523 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 398577009524 XdhC Rossmann domain; Region: XdhC_C; pfam13478 398577009525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 398577009526 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 398577009527 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 398577009528 Flagellar protein FliT; Region: FliT; cl05125 398577009529 flagellar protein FliS; Validated; Region: fliS; PRK05685 398577009530 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 398577009531 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 398577009532 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 398577009533 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 398577009534 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 398577009535 FliG C-terminal domain; Region: FliG_C; pfam01706 398577009536 flagellar assembly protein H; Validated; Region: fliH; PRK05687 398577009537 Flagellar assembly protein FliH; Region: FliH; pfam02108 398577009538 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 398577009539 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 398577009540 Walker A motif/ATP binding site; other site 398577009541 Walker B motif; other site 398577009542 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 398577009543 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 398577009544 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 398577009545 choline dehydrogenase; Validated; Region: PRK02106 398577009546 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577009547 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 398577009548 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 398577009549 NAD(P) binding site [chemical binding]; other site 398577009550 catalytic residues [active] 398577009551 serine/threonine protein kinase; Provisional; Region: PRK11768 398577009552 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 398577009553 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398577009554 EamA-like transporter family; Region: EamA; pfam00892 398577009555 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 398577009556 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577009557 active site 398577009558 catalytic tetrad [active] 398577009559 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 398577009560 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 398577009561 S-adenosylmethionine synthetase; Validated; Region: PRK05250 398577009562 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 398577009563 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 398577009564 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 398577009565 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398577009566 putative acyl-acceptor binding pocket; other site 398577009567 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 398577009568 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398577009569 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 398577009570 Protein of unknown function, DUF484; Region: DUF484; cl17449 398577009571 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 398577009572 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 398577009573 active site 398577009574 DNA binding site [nucleotide binding] 398577009575 Int/Topo IB signature motif; other site 398577009576 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 398577009577 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 398577009578 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 398577009579 putative RNA binding site [nucleotide binding]; other site 398577009580 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 398577009581 S-adenosylmethionine binding site [chemical binding]; other site 398577009582 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398577009583 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 398577009584 P-loop, Walker A motif; other site 398577009585 Base recognition motif; other site 398577009586 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 398577009587 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 398577009588 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 398577009589 active site 398577009590 HslU subunit interaction site [polypeptide binding]; other site 398577009591 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 398577009592 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 398577009593 Walker A motif; other site 398577009594 ATP binding site [chemical binding]; other site 398577009595 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 398577009596 Walker B motif; other site 398577009597 arginine finger; other site 398577009598 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398577009599 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 398577009600 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 398577009601 active site 398577009602 phosphorylation site [posttranslational modification] 398577009603 intermolecular recognition site; other site 398577009604 dimerization interface [polypeptide binding]; other site 398577009605 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577009606 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577009607 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 398577009608 dimer interface [polypeptide binding]; other site 398577009609 phosphorylation site [posttranslational modification] 398577009610 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 398577009611 ATP binding site [chemical binding]; other site 398577009612 Mg2+ binding site [ion binding]; other site 398577009613 G-X-G motif; other site 398577009614 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 398577009615 feedback inhibition sensing region; other site 398577009616 homohexameric interface [polypeptide binding]; other site 398577009617 nucleotide binding site [chemical binding]; other site 398577009618 N-acetyl-L-glutamate binding site [chemical binding]; other site 398577009619 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 398577009620 division inhibitor protein; Provisional; Region: slmA; PRK09480 398577009621 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577009622 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 398577009623 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 398577009624 Walker A motif; other site 398577009625 ATP binding site [chemical binding]; other site 398577009626 Walker B motif; other site 398577009627 arginine finger; other site 398577009628 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 398577009629 Walker A motif; other site 398577009630 ATP binding site [chemical binding]; other site 398577009631 Walker B motif; other site 398577009632 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398577009633 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 398577009634 ImpE protein; Region: ImpE; pfam07024 398577009635 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 398577009636 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398577009637 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 398577009638 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 398577009639 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 398577009640 putative major fimbrial protein SthE; Provisional; Region: PRK15292 398577009641 Fimbrial protein; Region: Fimbrial; pfam00419 398577009642 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 398577009643 RHS Repeat; Region: RHS_repeat; pfam05593 398577009644 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398577009645 RHS Repeat; Region: RHS_repeat; pfam05593 398577009646 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 398577009647 RHS protein; Region: RHS; pfam03527 398577009648 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398577009649 PAAR motif; Region: PAAR_motif; pfam05488 398577009650 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398577009651 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577009652 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577009653 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 398577009654 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 398577009655 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 398577009656 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 398577009657 hypothetical protein; Provisional; Region: PRK08126 398577009658 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 398577009659 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577009660 ligand binding site [chemical binding]; other site 398577009661 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 398577009662 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 398577009663 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 398577009664 Protein of unknown function (DUF796); Region: DUF796; pfam05638 398577009665 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 398577009666 Protein of unknown function (DUF877); Region: DUF877; pfam05943 398577009667 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 398577009668 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398577009669 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577009670 ligand binding site [chemical binding]; other site 398577009671 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 398577009672 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577009673 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398577009674 PapC N-terminal domain; Region: PapC_N; pfam13954 398577009675 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398577009676 PapC C-terminal domain; Region: PapC_C; pfam13953 398577009677 putative chaperone protein EcpD; Provisional; Region: PRK09926 398577009678 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398577009679 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398577009680 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577009681 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 398577009682 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 398577009683 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 398577009684 Autotransporter beta-domain; Region: Autotransporter; smart00869 398577009685 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 398577009686 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 398577009687 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398577009688 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 398577009689 S-adenosylmethionine binding site [chemical binding]; other site 398577009690 muropeptide transporter; Reviewed; Region: ampG; PRK11902 398577009691 AmpG-like permease; Region: 2A0125; TIGR00901 398577009692 Peptidase family M48; Region: Peptidase_M48; cl12018 398577009693 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 398577009694 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577009695 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398577009696 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 398577009697 putative NAD(P) binding site [chemical binding]; other site 398577009698 putative substrate binding site [chemical binding]; other site 398577009699 catalytic Zn binding site [ion binding]; other site 398577009700 structural Zn binding site [ion binding]; other site 398577009701 dimer interface [polypeptide binding]; other site 398577009702 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 398577009703 putative active site [active] 398577009704 putative catalytic site [active] 398577009705 putative DNA binding site [nucleotide binding]; other site 398577009706 putative phosphate binding site [ion binding]; other site 398577009707 metal binding site A [ion binding]; metal-binding site 398577009708 putative AP binding site [nucleotide binding]; other site 398577009709 putative metal binding site B [ion binding]; other site 398577009710 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 398577009711 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 398577009712 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 398577009713 GatB domain; Region: GatB_Yqey; smart00845 398577009714 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398577009715 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 398577009716 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 398577009717 rod shape-determining protein MreB; Provisional; Region: PRK13927 398577009718 MreB and similar proteins; Region: MreB_like; cd10225 398577009719 nucleotide binding site [chemical binding]; other site 398577009720 Mg binding site [ion binding]; other site 398577009721 putative protofilament interaction site [polypeptide binding]; other site 398577009722 RodZ interaction site [polypeptide binding]; other site 398577009723 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 398577009724 rod shape-determining protein MreC; Region: MreC; pfam04085 398577009725 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 398577009726 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 398577009727 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398577009728 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398577009729 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 398577009730 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398577009731 Sel1 repeat; Region: Sel1; cl02723 398577009732 Sel1-like repeats; Region: SEL1; smart00671 398577009733 Sel1-like repeats; Region: SEL1; smart00671 398577009734 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 398577009735 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 398577009736 active site 398577009737 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 398577009738 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 398577009739 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 398577009740 Ligand Binding Site [chemical binding]; other site 398577009741 Response regulator receiver domain; Region: Response_reg; pfam00072 398577009742 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 398577009743 active site 398577009744 phosphorylation site [posttranslational modification] 398577009745 intermolecular recognition site; other site 398577009746 dimerization interface [polypeptide binding]; other site 398577009747 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 398577009748 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 398577009749 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 398577009750 dimerization interface [polypeptide binding]; other site 398577009751 PAS domain; Region: PAS; smart00091 398577009752 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 398577009753 dimer interface [polypeptide binding]; other site 398577009754 phosphorylation site [posttranslational modification] 398577009755 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 398577009756 ATP binding site [chemical binding]; other site 398577009757 Mg2+ binding site [ion binding]; other site 398577009758 G-X-G motif; other site 398577009759 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 398577009760 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 398577009761 16S rRNA methyltransferase B; Provisional; Region: PRK10901 398577009762 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 398577009763 S-adenosylmethionine binding site [chemical binding]; other site 398577009764 M48 family peptidase; Provisional; Region: PRK03001 398577009765 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577009766 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 398577009767 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 398577009768 putative active site [active] 398577009769 substrate binding site [chemical binding]; other site 398577009770 putative cosubstrate binding site; other site 398577009771 catalytic site [active] 398577009772 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 398577009773 substrate binding site [chemical binding]; other site 398577009774 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 398577009775 active site 398577009776 catalytic residues [active] 398577009777 metal binding site [ion binding]; metal-binding site 398577009778 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 398577009779 DNA protecting protein DprA; Region: dprA; TIGR00732 398577009780 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 398577009781 catalytic residues [active] 398577009782 DNA topoisomerase III; Validated; Region: PRK08173 398577009783 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 398577009784 active site 398577009785 putative interdomain interaction site [polypeptide binding]; other site 398577009786 putative metal-binding site [ion binding]; other site 398577009787 putative nucleotide binding site [chemical binding]; other site 398577009788 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 398577009789 domain I; other site 398577009790 DNA binding groove [nucleotide binding] 398577009791 phosphate binding site [ion binding]; other site 398577009792 domain II; other site 398577009793 domain III; other site 398577009794 nucleotide binding site [chemical binding]; other site 398577009795 catalytic site [active] 398577009796 domain IV; other site 398577009797 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 398577009798 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 398577009799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577009800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577009801 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 398577009802 putative effector binding pocket; other site 398577009803 dimerization interface [polypeptide binding]; other site 398577009804 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 398577009805 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398577009806 dimerization interface [polypeptide binding]; other site 398577009807 NAD binding site [chemical binding]; other site 398577009808 ligand binding site [chemical binding]; other site 398577009809 catalytic site [active] 398577009810 Patatin-like phospholipase; Region: Patatin; pfam01734 398577009811 active site 398577009812 nucleophile elbow; other site 398577009813 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 398577009814 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 398577009815 CoenzymeA binding site [chemical binding]; other site 398577009816 subunit interaction site [polypeptide binding]; other site 398577009817 PHB binding site; other site 398577009818 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 398577009819 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 398577009820 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 398577009821 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 398577009822 CGNR zinc finger; Region: zf-CGNR; pfam11706 398577009823 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577009824 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 398577009825 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 398577009826 NAD(P) binding site [chemical binding]; other site 398577009827 catalytic residues [active] 398577009828 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 398577009829 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 398577009830 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577009831 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577009832 V-type (H+)-ATPase V1, B subunit; Region: V-ATPase_V1_B; TIGR01040 398577009833 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 398577009834 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577009835 DNA-binding site [nucleotide binding]; DNA binding site 398577009836 FCD domain; Region: FCD; pfam07729 398577009837 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 398577009838 Phosphoesterase family; Region: Phosphoesterase; pfam04185 398577009839 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398577009840 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398577009841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577009842 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 398577009843 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 398577009844 dimerization interface [polypeptide binding]; other site 398577009845 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 398577009846 L-lactate permease; Region: Lactate_perm; cl00701 398577009847 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577009848 glutamate--cysteine ligase; Provisional; Region: PRK02107 398577009849 AlkA N-terminal domain; Region: AlkA_N; pfam06029 398577009850 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 398577009851 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 398577009852 minor groove reading motif; other site 398577009853 helix-hairpin-helix signature motif; other site 398577009854 substrate binding pocket [chemical binding]; other site 398577009855 active site 398577009856 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 398577009857 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 398577009858 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577009859 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577009860 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 398577009861 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 398577009862 DNA binding site [nucleotide binding] 398577009863 active site 398577009864 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 398577009865 dimer interface [polypeptide binding]; other site 398577009866 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577009867 metal binding site [ion binding]; metal-binding site 398577009868 YaeQ protein; Region: YaeQ; pfam07152 398577009869 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398577009870 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577009871 Coenzyme A binding pocket [chemical binding]; other site 398577009872 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 398577009873 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577009874 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577009875 metal binding site [ion binding]; metal-binding site 398577009876 active site 398577009877 I-site; other site 398577009878 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 398577009879 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 398577009880 trmE is a tRNA modification GTPase; Region: trmE; cd04164 398577009881 G1 box; other site 398577009882 GTP/Mg2+ binding site [chemical binding]; other site 398577009883 Switch I region; other site 398577009884 G2 box; other site 398577009885 Switch II region; other site 398577009886 G3 box; other site 398577009887 G4 box; other site 398577009888 G5 box; other site 398577009889 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 398577009890 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 398577009891 non-specific DNA binding site [nucleotide binding]; other site 398577009892 salt bridge; other site 398577009893 sequence-specific DNA binding site [nucleotide binding]; other site 398577009894 membrane protein insertase; Provisional; Region: PRK01318 398577009895 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 398577009896 hypothetical protein; Validated; Region: PRK00041 398577009897 Ribonuclease P; Region: Ribonuclease_P; cl00457 398577009898 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 398577009899 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 398577009900 ArsC family; Region: ArsC; pfam03960 398577009901 catalytic residues [active] 398577009902 ParA-like protein; Provisional; Region: PHA02518 398577009903 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 398577009904 P-loop; other site 398577009905 Magnesium ion binding site [ion binding]; other site 398577009906 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 398577009907 ParB-like nuclease domain; Region: ParB; smart00470 398577009908 Initiator Replication protein; Region: Rep_3; pfam01051 398577009909 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 398577009910 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 398577009911 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 398577009912 active site 398577009913 catalytic residues [active] 398577009914 Int/Topo IB signature motif; other site 398577009915 DNA binding site [nucleotide binding] 398577009916 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 398577009917 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577009918 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 398577009919 non-specific DNA binding site [nucleotide binding]; other site 398577009920 salt bridge; other site 398577009921 sequence-specific DNA binding site [nucleotide binding]; other site 398577009922 Cupin domain; Region: Cupin_2; pfam07883 398577009923 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 398577009924 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 398577009925 substrate-cofactor binding pocket; other site 398577009926 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577009927 catalytic residue [active] 398577009928 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 398577009929 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398577009930 NAD(P) binding site [chemical binding]; other site 398577009931 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577009932 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577009933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 398577009934 SnoaL-like domain; Region: SnoaL_2; pfam12680 398577009935 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 398577009936 tartrate dehydrogenase; Region: TTC; TIGR02089 398577009937 transcriptional activator TtdR; Provisional; Region: PRK09801 398577009938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577009939 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 398577009940 putative effector binding pocket; other site 398577009941 putative dimerization interface [polypeptide binding]; other site 398577009942 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 398577009943 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398577009944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577009945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577009946 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 398577009947 dimerization interface [polypeptide binding]; other site 398577009948 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398577009949 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398577009950 nucleophile elbow; other site 398577009951 Patatin phospholipase; Region: DUF3734; pfam12536 398577009952 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 398577009953 classical (c) SDRs; Region: SDR_c; cd05233 398577009954 NAD(P) binding site [chemical binding]; other site 398577009955 active site 398577009956 acetoacetate decarboxylase; Provisional; Region: PRK02265 398577009957 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 398577009958 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398577009959 active site 398577009960 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 398577009961 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 398577009962 FAD binding pocket [chemical binding]; other site 398577009963 FAD binding motif [chemical binding]; other site 398577009964 phosphate binding motif [ion binding]; other site 398577009965 NAD binding pocket [chemical binding]; other site 398577009966 Predicted transcriptional regulators [Transcription]; Region: COG1695 398577009967 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 398577009968 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 398577009969 phosphopeptide binding site; other site 398577009970 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398577009971 active site 398577009972 ATP binding site [chemical binding]; other site 398577009973 substrate binding site [chemical binding]; other site 398577009974 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 398577009975 activation loop (A-loop); other site 398577009976 cyclase homology domain; Region: CHD; cd07302 398577009977 dimer interface [polypeptide binding]; other site 398577009978 metal binding site [ion binding]; metal-binding site 398577009979 AAA ATPase domain; Region: AAA_16; pfam13191 398577009980 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 398577009981 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 398577009982 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 398577009983 YcaO-like family; Region: YcaO; pfam02624 398577009984 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 398577009985 Inclusion body protein; Region: PixA; pfam12306 398577009986 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577009987 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577009988 choline dehydrogenase; Validated; Region: PRK02106 398577009989 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577009990 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 398577009991 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577009992 NAD(P) binding site [chemical binding]; other site 398577009993 catalytic residues [active] 398577009994 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577009995 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 398577009996 trimer interface [polypeptide binding]; other site 398577009997 eyelet of channel; other site 398577009998 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577009999 classical (c) SDRs; Region: SDR_c; cd05233 398577010000 NAD(P) binding site [chemical binding]; other site 398577010001 active site 398577010002 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398577010003 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 398577010004 putative NAD(P) binding site [chemical binding]; other site 398577010005 catalytic Zn binding site [ion binding]; other site 398577010006 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010007 D-galactonate transporter; Region: 2A0114; TIGR00893 398577010008 putative substrate translocation pore; other site 398577010009 Cupin domain; Region: Cupin_2; pfam07883 398577010010 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577010011 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010012 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 398577010013 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577010014 active site 398577010015 catalytic tetrad [active] 398577010016 Lysine efflux permease [General function prediction only]; Region: COG1279 398577010017 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 398577010018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010019 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 398577010020 dimerization interface [polypeptide binding]; other site 398577010021 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 398577010022 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 398577010023 ligand binding site [chemical binding]; other site 398577010024 flexible hinge region; other site 398577010025 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 398577010026 putative switch regulator; other site 398577010027 non-specific DNA interactions [nucleotide binding]; other site 398577010028 DNA binding site [nucleotide binding] 398577010029 sequence specific DNA binding site [nucleotide binding]; other site 398577010030 putative cAMP binding site [chemical binding]; other site 398577010031 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 398577010032 Ligand Binding Site [chemical binding]; other site 398577010033 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 398577010034 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 398577010035 serine O-acetyltransferase; Region: cysE; TIGR01172 398577010036 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 398577010037 trimer interface [polypeptide binding]; other site 398577010038 active site 398577010039 substrate binding site [chemical binding]; other site 398577010040 CoA binding site [chemical binding]; other site 398577010041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577010042 short chain dehydrogenase; Provisional; Region: PRK09134 398577010043 NAD(P) binding site [chemical binding]; other site 398577010044 active site 398577010045 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 398577010046 GTP cyclohydrolase I; Provisional; Region: PLN03044 398577010047 active site 398577010048 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010050 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 398577010051 substrate binding pocket [chemical binding]; other site 398577010052 dimerization interface [polypeptide binding]; other site 398577010053 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 398577010054 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577010055 Coenzyme A transferase; Region: CoA_trans; cl17247 398577010056 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 398577010057 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 398577010058 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 398577010059 tetramer interface [polypeptide binding]; other site 398577010060 active site 398577010061 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 398577010062 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 398577010063 benzoate transport; Region: 2A0115; TIGR00895 398577010064 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010065 putative substrate translocation pore; other site 398577010066 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010067 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577010068 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 398577010069 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 398577010070 putative active site [active] 398577010071 putative NTP binding site [chemical binding]; other site 398577010072 putative nucleic acid binding site [nucleotide binding]; other site 398577010073 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398577010074 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398577010075 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 398577010076 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 398577010077 active site 398577010078 substrate binding site [chemical binding]; other site 398577010079 Mg2+ binding site [ion binding]; other site 398577010080 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 398577010081 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 398577010082 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 398577010083 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010084 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010085 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 398577010086 putative effector binding pocket; other site 398577010087 dimerization interface [polypeptide binding]; other site 398577010088 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 398577010089 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398577010090 potential catalytic triad [active] 398577010091 conserved cys residue [active] 398577010092 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398577010093 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 398577010094 potential catalytic triad [active] 398577010095 conserved cys residue [active] 398577010096 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577010097 classical (c) SDRs; Region: SDR_c; cd05233 398577010098 NAD(P) binding site [chemical binding]; other site 398577010099 active site 398577010100 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 398577010101 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 398577010102 RNA polymerase sigma factor; Provisional; Region: PRK11922 398577010103 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 398577010104 DNA binding residues [nucleotide binding] 398577010105 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577010106 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577010107 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 398577010108 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 398577010109 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 398577010110 Chromate transporter; Region: Chromate_transp; pfam02417 398577010111 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 398577010112 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 398577010113 putative metal binding site [ion binding]; other site 398577010114 putative homodimer interface [polypeptide binding]; other site 398577010115 putative homotetramer interface [polypeptide binding]; other site 398577010116 putative homodimer-homodimer interface [polypeptide binding]; other site 398577010117 putative allosteric switch controlling residues; other site 398577010118 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 398577010119 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 398577010120 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 398577010121 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 398577010122 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 398577010123 N-terminal plug; other site 398577010124 ligand-binding site [chemical binding]; other site 398577010125 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010126 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577010127 putative substrate translocation pore; other site 398577010128 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577010129 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398577010130 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398577010131 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398577010132 Amidohydrolase; Region: Amidohydro_2; pfam04909 398577010133 Uncharacterized conserved protein [Function unknown]; Region: COG3391 398577010134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010135 D-galactonate transporter; Region: 2A0114; TIGR00893 398577010136 putative substrate translocation pore; other site 398577010137 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398577010138 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398577010139 inhibitor site; inhibition site 398577010140 active site 398577010141 dimer interface [polypeptide binding]; other site 398577010142 catalytic residue [active] 398577010143 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398577010144 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 398577010145 putative active site pocket [active] 398577010146 putative metal binding site [ion binding]; other site 398577010147 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 398577010148 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 398577010149 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010151 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 398577010152 dimerization interface [polypeptide binding]; other site 398577010153 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010154 D-galactonate transporter; Region: 2A0114; TIGR00893 398577010155 putative substrate translocation pore; other site 398577010156 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 398577010157 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 398577010158 catalytic core [active] 398577010159 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 398577010160 Phosphotransferase enzyme family; Region: APH; pfam01636 398577010161 putative active site [active] 398577010162 putative substrate binding site [chemical binding]; other site 398577010163 ATP binding site [chemical binding]; other site 398577010164 short chain dehydrogenase; Provisional; Region: PRK07035 398577010165 classical (c) SDRs; Region: SDR_c; cd05233 398577010166 NAD(P) binding site [chemical binding]; other site 398577010167 active site 398577010168 short chain dehydrogenase; Provisional; Region: PRK06172 398577010169 classical (c) SDRs; Region: SDR_c; cd05233 398577010170 NAD(P) binding site [chemical binding]; other site 398577010171 active site 398577010172 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577010173 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577010174 active site 398577010175 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 398577010176 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010177 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 398577010178 substrate binding pocket [chemical binding]; other site 398577010179 dimerization interface [polypeptide binding]; other site 398577010180 DnaJ domain; Region: DnaJ; pfam00226 398577010181 HSP70 interaction site [polypeptide binding]; other site 398577010182 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398577010183 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577010184 DNA-binding site [nucleotide binding]; DNA binding site 398577010185 FCD domain; Region: FCD; pfam07729 398577010186 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 398577010187 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398577010188 betaine aldehyde dehydrogenase; Region: PLN02467 398577010189 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 398577010190 NAD(P) binding site [chemical binding]; other site 398577010191 catalytic residues [active] 398577010192 catalytic residues [active] 398577010193 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577010194 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398577010195 Proline racemase; Region: Pro_racemase; pfam05544 398577010196 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398577010197 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398577010198 inhibitor site; inhibition site 398577010199 active site 398577010200 dimer interface [polypeptide binding]; other site 398577010201 catalytic residue [active] 398577010202 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577010203 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 398577010204 dimer interface [polypeptide binding]; other site 398577010205 conserved gate region; other site 398577010206 putative PBP binding loops; other site 398577010207 ABC-ATPase subunit interface; other site 398577010208 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577010209 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 398577010210 dimer interface [polypeptide binding]; other site 398577010211 conserved gate region; other site 398577010212 putative PBP binding loops; other site 398577010213 ABC-ATPase subunit interface; other site 398577010214 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398577010215 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577010216 Walker A/P-loop; other site 398577010217 ATP binding site [chemical binding]; other site 398577010218 Q-loop/lid; other site 398577010219 ABC transporter signature motif; other site 398577010220 Walker B; other site 398577010221 D-loop; other site 398577010222 H-loop/switch region; other site 398577010223 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 398577010224 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577010225 substrate binding pocket [chemical binding]; other site 398577010226 membrane-bound complex binding site; other site 398577010227 hinge residues; other site 398577010228 DNA polymerase II; Reviewed; Region: PRK05762 398577010229 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 398577010230 active site 398577010231 catalytic site [active] 398577010232 substrate binding site [chemical binding]; other site 398577010233 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 398577010234 active site 398577010235 metal-binding site 398577010236 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398577010237 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 398577010238 putative active site [active] 398577010239 heme pocket [chemical binding]; other site 398577010240 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 398577010241 dimer interface [polypeptide binding]; other site 398577010242 phosphorylation site [posttranslational modification] 398577010243 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 398577010244 ATP binding site [chemical binding]; other site 398577010245 Mg2+ binding site [ion binding]; other site 398577010246 G-X-G motif; other site 398577010247 Response regulator receiver domain; Region: Response_reg; pfam00072 398577010248 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 398577010249 active site 398577010250 phosphorylation site [posttranslational modification] 398577010251 intermolecular recognition site; other site 398577010252 dimerization interface [polypeptide binding]; other site 398577010253 phage resistance protein; Provisional; Region: PRK10551 398577010254 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 398577010255 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 398577010256 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 398577010257 pyrophosphatase PpaX; Provisional; Region: PRK13288 398577010258 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398577010259 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577010260 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577010261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010263 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 398577010264 putative dimerization interface [polypeptide binding]; other site 398577010265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010266 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577010267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010268 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 398577010269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577010270 NAD(P) binding site [chemical binding]; other site 398577010271 active site 398577010272 benzoate transporter; Region: benE; TIGR00843 398577010273 Benzoate membrane transport protein; Region: BenE; pfam03594 398577010274 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 398577010275 putative di-iron ligands [ion binding]; other site 398577010276 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 398577010277 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 398577010278 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 398577010279 ATP binding site [chemical binding]; other site 398577010280 Mg++ binding site [ion binding]; other site 398577010281 motif III; other site 398577010282 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 398577010283 nucleotide binding region [chemical binding]; other site 398577010284 ATP-binding site [chemical binding]; other site 398577010285 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 398577010286 putative RNA binding site [nucleotide binding]; other site 398577010287 malate:quinone oxidoreductase; Validated; Region: PRK05257 398577010288 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 398577010289 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577010290 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 398577010291 AsnC family; Region: AsnC_trans_reg; pfam01037 398577010292 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 398577010293 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 398577010294 active site 398577010295 Zn binding site [ion binding]; other site 398577010296 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398577010297 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398577010298 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398577010299 Peptidase family M23; Region: Peptidase_M23; pfam01551 398577010300 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 398577010301 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 398577010302 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 398577010303 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 398577010304 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577010305 catalytic residues [active] 398577010306 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 398577010307 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398577010308 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 398577010309 S-adenosylmethionine binding site [chemical binding]; other site 398577010310 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398577010311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577010312 Coenzyme A binding pocket [chemical binding]; other site 398577010313 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 398577010314 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577010315 DNA-binding site [nucleotide binding]; DNA binding site 398577010316 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 398577010317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577010318 homodimer interface [polypeptide binding]; other site 398577010319 catalytic residue [active] 398577010320 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 398577010321 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577010322 active site 398577010323 catalytic tetrad [active] 398577010324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010326 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 398577010327 putative effector binding pocket; other site 398577010328 dimerization interface [polypeptide binding]; other site 398577010329 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 398577010330 dimerization interface [polypeptide binding]; other site 398577010331 putative DNA binding site [nucleotide binding]; other site 398577010332 putative Zn2+ binding site [ion binding]; other site 398577010333 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 398577010334 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577010335 catalytic residue [active] 398577010336 Cupin domain; Region: Cupin_2; cl17218 398577010337 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398577010338 classical (c) SDRs; Region: SDR_c; cd05233 398577010339 NAD(P) binding site [chemical binding]; other site 398577010340 active site 398577010341 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 398577010342 Predicted membrane protein [Function unknown]; Region: COG4541 398577010343 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 398577010344 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577010345 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 398577010346 putative DNA binding site [nucleotide binding]; other site 398577010347 putative Zn2+ binding site [ion binding]; other site 398577010348 AsnC family; Region: AsnC_trans_reg; pfam01037 398577010349 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 398577010350 sequence-specific DNA binding site [nucleotide binding]; other site 398577010351 salt bridge; other site 398577010352 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 398577010353 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577010354 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 398577010355 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 398577010356 Surface antigen; Region: Bac_surface_Ag; pfam01103 398577010357 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 398577010358 haemagglutination activity domain; Region: Haemagg_act; smart00912 398577010359 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 398577010360 dimer interface [polypeptide binding]; other site 398577010361 phosphorylation site [posttranslational modification] 398577010362 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 398577010363 ATP binding site [chemical binding]; other site 398577010364 Mg2+ binding site [ion binding]; other site 398577010365 G-X-G motif; other site 398577010366 Response regulator receiver domain; Region: Response_reg; pfam00072 398577010367 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 398577010368 active site 398577010369 phosphorylation site [posttranslational modification] 398577010370 intermolecular recognition site; other site 398577010371 dimerization interface [polypeptide binding]; other site 398577010372 transcriptional regulator RcsB; Provisional; Region: PRK10840 398577010373 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 398577010374 active site 398577010375 phosphorylation site [posttranslational modification] 398577010376 intermolecular recognition site; other site 398577010377 dimerization interface [polypeptide binding]; other site 398577010378 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 398577010379 DNA binding residues [nucleotide binding] 398577010380 dimerization interface [polypeptide binding]; other site 398577010381 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 398577010382 dimer interface [polypeptide binding]; other site 398577010383 phosphorylation site [posttranslational modification] 398577010384 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 398577010385 ATP binding site [chemical binding]; other site 398577010386 Mg2+ binding site [ion binding]; other site 398577010387 G-X-G motif; other site 398577010388 Response regulator receiver domain; Region: Response_reg; pfam00072 398577010389 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 398577010390 active site 398577010391 phosphorylation site [posttranslational modification] 398577010392 intermolecular recognition site; other site 398577010393 dimerization interface [polypeptide binding]; other site 398577010394 Fimbrial protein; Region: Fimbrial; pfam00419 398577010395 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577010396 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 398577010397 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398577010398 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398577010399 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398577010400 PapC N-terminal domain; Region: PapC_N; pfam13954 398577010401 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398577010402 PapC C-terminal domain; Region: PapC_C; pfam13953 398577010403 Fimbrial protein; Region: Fimbrial; pfam00419 398577010404 putative major fimbrial protein SthE; Provisional; Region: PRK15292 398577010405 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577010406 putative major fimbrial protein SthE; Provisional; Region: PRK15292 398577010407 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577010408 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 398577010409 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 398577010410 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 398577010411 catalytic residues [active] 398577010412 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 398577010413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577010414 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 398577010415 dimer interface [polypeptide binding]; other site 398577010416 phosphorylation site [posttranslational modification] 398577010417 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 398577010418 ATP binding site [chemical binding]; other site 398577010419 Mg2+ binding site [ion binding]; other site 398577010420 G-X-G motif; other site 398577010421 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 398577010422 Response regulator receiver domain; Region: Response_reg; pfam00072 398577010423 active site 398577010424 phosphorylation site [posttranslational modification] 398577010425 intermolecular recognition site; other site 398577010426 dimerization interface [polypeptide binding]; other site 398577010427 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 398577010428 BetR domain; Region: BetR; pfam08667 398577010429 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398577010430 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 398577010431 active site 398577010432 phosphorylation site [posttranslational modification] 398577010433 intermolecular recognition site; other site 398577010434 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398577010435 Sel1-like repeats; Region: SEL1; smart00671 398577010436 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 398577010437 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 398577010438 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 398577010439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577010440 catalytic residue [active] 398577010441 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 398577010442 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 398577010443 putative DNA binding site [nucleotide binding]; other site 398577010444 putative Zn2+ binding site [ion binding]; other site 398577010445 AsnC family; Region: AsnC_trans_reg; pfam01037 398577010446 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 398577010447 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 398577010448 dimer interface [polypeptide binding]; other site 398577010449 TPP-binding site [chemical binding]; other site 398577010450 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 398577010451 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577010452 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 398577010453 putative DNA binding site [nucleotide binding]; other site 398577010454 putative Zn2+ binding site [ion binding]; other site 398577010455 AsnC family; Region: AsnC_trans_reg; pfam01037 398577010456 pyruvate dehydrogenase; Provisional; Region: PRK09124 398577010457 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 398577010458 PYR/PP interface [polypeptide binding]; other site 398577010459 tetramer interface [polypeptide binding]; other site 398577010460 dimer interface [polypeptide binding]; other site 398577010461 TPP binding site [chemical binding]; other site 398577010462 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398577010463 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 398577010464 TPP-binding site [chemical binding]; other site 398577010465 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 398577010466 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010468 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 398577010469 dimerization interface [polypeptide binding]; other site 398577010470 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 398577010471 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 398577010472 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398577010473 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398577010474 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398577010475 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398577010476 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 398577010477 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 398577010478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577010479 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577010480 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577010481 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577010482 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577010483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010485 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 398577010486 putative dimerization interface [polypeptide binding]; other site 398577010487 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 398577010488 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 398577010489 S-adenosylmethionine binding site [chemical binding]; other site 398577010490 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398577010491 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577010492 Coenzyme A binding pocket [chemical binding]; other site 398577010493 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 398577010494 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577010495 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 398577010496 DNA binding residues [nucleotide binding] 398577010497 dimerization interface [polypeptide binding]; other site 398577010498 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010499 D-galactonate transporter; Region: 2A0114; TIGR00893 398577010500 putative substrate translocation pore; other site 398577010501 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 398577010502 Predicted transcriptional regulators [Transcription]; Region: COG1733 398577010503 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 398577010504 dimerization interface [polypeptide binding]; other site 398577010505 putative DNA binding site [nucleotide binding]; other site 398577010506 putative Zn2+ binding site [ion binding]; other site 398577010507 glutathionine S-transferase; Provisional; Region: PRK10542 398577010508 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 398577010509 C-terminal domain interface [polypeptide binding]; other site 398577010510 GSH binding site (G-site) [chemical binding]; other site 398577010511 dimer interface [polypeptide binding]; other site 398577010512 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 398577010513 dimer interface [polypeptide binding]; other site 398577010514 N-terminal domain interface [polypeptide binding]; other site 398577010515 substrate binding pocket (H-site) [chemical binding]; other site 398577010516 Outer membrane efflux protein; Region: OEP; pfam02321 398577010517 Outer membrane efflux protein; Region: OEP; pfam02321 398577010518 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577010519 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577010520 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 398577010521 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 398577010522 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 398577010523 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 398577010524 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 398577010525 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398577010526 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 398577010527 dimerization interface [polypeptide binding]; other site 398577010528 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 398577010529 dimer interface [polypeptide binding]; other site 398577010530 phosphorylation site [posttranslational modification] 398577010531 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 398577010532 ATP binding site [chemical binding]; other site 398577010533 Mg2+ binding site [ion binding]; other site 398577010534 G-X-G motif; other site 398577010535 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398577010536 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 398577010537 active site 398577010538 phosphorylation site [posttranslational modification] 398577010539 intermolecular recognition site; other site 398577010540 dimerization interface [polypeptide binding]; other site 398577010541 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 398577010542 DNA binding site [nucleotide binding] 398577010543 Outer membrane efflux protein; Region: OEP; pfam02321 398577010544 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 398577010545 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 398577010546 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 398577010547 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 398577010548 CopC domain; Region: CopC; pfam04234 398577010549 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 398577010550 generic binding surface I; other site 398577010551 generic binding surface II; other site 398577010552 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 398577010553 putative active site [active] 398577010554 putative catalytic site [active] 398577010555 putative Mg binding site IVb [ion binding]; other site 398577010556 putative phosphate binding site [ion binding]; other site 398577010557 putative DNA binding site [nucleotide binding]; other site 398577010558 putative Mg binding site IVa [ion binding]; other site 398577010559 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 398577010560 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 398577010561 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577010562 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 398577010563 FAD binding domain; Region: FAD_binding_4; pfam01565 398577010564 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 398577010565 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 398577010566 classical (c) SDRs; Region: SDR_c; cd05233 398577010567 NAD(P) binding site [chemical binding]; other site 398577010568 active site 398577010569 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 398577010570 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 398577010571 dimer interface [polypeptide binding]; other site 398577010572 active site 398577010573 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398577010574 folate binding site [chemical binding]; other site 398577010575 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 398577010576 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 398577010577 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 398577010578 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577010579 catalytic residue [active] 398577010580 Putative phosphatase (DUF442); Region: DUF442; cl17385 398577010581 PAAR motif; Region: PAAR_motif; pfam05488 398577010582 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 398577010583 active site 398577010584 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 398577010585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577010586 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577010587 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577010588 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577010589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 398577010590 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398577010591 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010592 putative substrate translocation pore; other site 398577010593 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010594 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010595 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 398577010596 putative effector binding pocket; other site 398577010597 dimerization interface [polypeptide binding]; other site 398577010598 3-hydroxyanthranilic acid dioxygenase; Region: 3-HAO; cl17399 398577010599 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577010600 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 398577010601 NAD(P) binding site [chemical binding]; other site 398577010602 catalytic residues [active] 398577010603 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398577010604 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 398577010605 active site 398577010606 dimer interface [polypeptide binding]; other site 398577010607 metal binding site [ion binding]; metal-binding site 398577010608 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 398577010609 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 398577010610 dimer interface [polypeptide binding]; other site 398577010611 active site 398577010612 YciI-like protein; Reviewed; Region: PRK12863 398577010613 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 398577010614 iron-sulfur cluster [ion binding]; other site 398577010615 [2Fe-2S] cluster binding site [ion binding]; other site 398577010616 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577010617 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 398577010618 trimer interface [polypeptide binding]; other site 398577010619 eyelet of channel; other site 398577010620 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577010621 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 398577010622 putative C-terminal domain interface [polypeptide binding]; other site 398577010623 putative GSH binding site (G-site) [chemical binding]; other site 398577010624 putative dimer interface [polypeptide binding]; other site 398577010625 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 398577010626 dimer interface [polypeptide binding]; other site 398577010627 N-terminal domain interface [polypeptide binding]; other site 398577010628 putative substrate binding pocket (H-site) [chemical binding]; other site 398577010629 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577010630 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010631 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 398577010632 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398577010633 Protein of unknown function (DUF805); Region: DUF805; pfam05656 398577010634 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398577010635 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 398577010636 motif II; other site 398577010637 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 398577010638 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 398577010639 Repair protein; Region: Repair_PSII; pfam04536 398577010640 Repair protein; Region: Repair_PSII; pfam04536 398577010641 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398577010642 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 398577010643 glutaminase active site [active] 398577010644 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 398577010645 dimer interface [polypeptide binding]; other site 398577010646 active site 398577010647 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 398577010648 dimer interface [polypeptide binding]; other site 398577010649 active site 398577010650 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 398577010651 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577010652 AsnC family; Region: AsnC_trans_reg; pfam01037 398577010653 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 398577010654 oligomerization interface [polypeptide binding]; other site 398577010655 active site 398577010656 metal binding site [ion binding]; metal-binding site 398577010657 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577010658 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577010659 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010660 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 398577010661 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 398577010662 DNA binding site [nucleotide binding] 398577010663 active site 398577010664 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 398577010665 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 398577010666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010668 AlkA N-terminal domain; Region: AlkA_N; pfam06029 398577010669 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 398577010670 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010671 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577010672 putative substrate translocation pore; other site 398577010673 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577010674 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577010675 DNA binding site [nucleotide binding] 398577010676 domain linker motif; other site 398577010677 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 398577010678 dimerization interface [polypeptide binding]; other site 398577010679 ligand binding site [chemical binding]; other site 398577010680 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577010681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577010682 NAD(P) binding site [chemical binding]; other site 398577010683 active site 398577010684 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 398577010685 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 398577010686 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398577010687 DNA binding residues [nucleotide binding] 398577010688 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398577010689 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 398577010690 putative active site [active] 398577010691 putative FMN binding site [chemical binding]; other site 398577010692 putative substrate binding site [chemical binding]; other site 398577010693 putative catalytic residue [active] 398577010694 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577010695 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 398577010696 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 398577010697 tetrameric interface [polypeptide binding]; other site 398577010698 activator binding site; other site 398577010699 NADP binding site [chemical binding]; other site 398577010700 substrate binding site [chemical binding]; other site 398577010701 catalytic residues [active] 398577010702 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577010703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010704 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 398577010705 dimerization interface [polypeptide binding]; other site 398577010706 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 398577010707 CsbD-like; Region: CsbD; cl17424 398577010708 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 398577010709 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398577010710 PAS domain; Region: PAS_9; pfam13426 398577010711 PAS domain S-box; Region: sensory_box; TIGR00229 398577010712 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 398577010713 putative active site [active] 398577010714 heme pocket [chemical binding]; other site 398577010715 PAS domain S-box; Region: sensory_box; TIGR00229 398577010716 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 398577010717 putative active site [active] 398577010718 heme pocket [chemical binding]; other site 398577010719 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577010720 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 398577010721 DNA binding residues [nucleotide binding] 398577010722 dimerization interface [polypeptide binding]; other site 398577010723 CsbD-like; Region: CsbD; pfam05532 398577010724 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577010725 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 398577010726 dimerization interface [polypeptide binding]; other site 398577010727 ligand binding site [chemical binding]; other site 398577010728 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577010729 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 398577010730 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 398577010731 HSP70 interaction site [polypeptide binding]; other site 398577010732 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 398577010733 Helix-turn-helix domain; Region: HTH_38; pfam13936 398577010734 Homeodomain-like domain; Region: HTH_32; pfam13565 398577010735 Integrase core domain; Region: rve; pfam00665 398577010736 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577010737 classical (c) SDRs; Region: SDR_c; cd05233 398577010738 NAD(P) binding site [chemical binding]; other site 398577010739 active site 398577010740 OsmC-like protein; Region: OsmC; pfam02566 398577010741 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577010742 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577010743 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 398577010744 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 398577010745 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 398577010746 catalytic residues [active] 398577010747 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398577010748 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 398577010749 FMN binding site [chemical binding]; other site 398577010750 active site 398577010751 substrate binding site [chemical binding]; other site 398577010752 catalytic residue [active] 398577010753 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 398577010754 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 398577010755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577010756 homodimer interface [polypeptide binding]; other site 398577010757 catalytic residue [active] 398577010758 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 398577010759 active site 1 [active] 398577010760 dimer interface [polypeptide binding]; other site 398577010761 hexamer interface [polypeptide binding]; other site 398577010762 active site 2 [active] 398577010763 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 398577010764 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 398577010765 generic binding surface II; other site 398577010766 generic binding surface I; other site 398577010767 Uncharacterized conserved protein [Function unknown]; Region: COG5439 398577010768 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 398577010769 RNAase interaction site [polypeptide binding]; other site 398577010770 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 398577010771 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 398577010772 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 398577010773 DNA binding residues [nucleotide binding] 398577010774 putative dimer interface [polypeptide binding]; other site 398577010775 Partial alpha/beta-hydrolase lipase region; Region: Abhydro_lipase; pfam04083 398577010776 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577010777 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 398577010778 PAS domain; Region: PAS_9; pfam13426 398577010779 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 398577010780 putative active site [active] 398577010781 heme pocket [chemical binding]; other site 398577010782 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 398577010783 DNA binding residues [nucleotide binding] 398577010784 dimerization interface [polypeptide binding]; other site 398577010785 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 398577010786 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 398577010787 active site 398577010788 dimer interface [polypeptide binding]; other site 398577010789 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010790 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577010791 putative substrate translocation pore; other site 398577010792 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 398577010793 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 398577010794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577010795 homodimer interface [polypeptide binding]; other site 398577010796 catalytic residue [active] 398577010797 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 398577010798 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 398577010799 Epoxide hydrolase N terminus; Region: EHN; pfam06441 398577010800 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577010801 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577010802 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577010803 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 398577010804 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577010805 amidase; Provisional; Region: PRK07487 398577010806 Amidase; Region: Amidase; cl11426 398577010807 LysE type translocator; Region: LysE; cl00565 398577010808 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 398577010809 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 398577010810 ring oligomerisation interface [polypeptide binding]; other site 398577010811 ATP/Mg binding site [chemical binding]; other site 398577010812 stacking interactions; other site 398577010813 hinge regions; other site 398577010814 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 398577010815 oligomerisation interface [polypeptide binding]; other site 398577010816 mobile loop; other site 398577010817 roof hairpin; other site 398577010818 short chain dehydrogenase; Provisional; Region: PRK07577 398577010819 classical (c) SDRs; Region: SDR_c; cd05233 398577010820 NAD(P) binding site [chemical binding]; other site 398577010821 active site 398577010822 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398577010823 Sulfatase; Region: Sulfatase; cl17466 398577010824 Sulfatase; Region: Sulfatase; cl17466 398577010825 Sulfatase; Region: Sulfatase; cl17466 398577010826 Uncharacterized conserved protein [Function unknown]; Region: COG1262 398577010827 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 398577010828 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 398577010829 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398577010830 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 398577010831 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010832 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010833 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 398577010834 dimerization interface [polypeptide binding]; other site 398577010835 hypothetical protein; Provisional; Region: PRK05463 398577010836 benzoate transport; Region: 2A0115; TIGR00895 398577010837 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010838 putative substrate translocation pore; other site 398577010839 5-oxoprolinase; Region: PLN02666 398577010840 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 398577010841 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 398577010842 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 398577010843 RNase II stability modulator; Provisional; Region: PRK10060 398577010844 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577010845 metal binding site [ion binding]; metal-binding site 398577010846 active site 398577010847 I-site; other site 398577010848 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 398577010849 enoyl-CoA hydratase; Validated; Region: PRK08788 398577010850 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 398577010851 substrate binding site [chemical binding]; other site 398577010852 oxyanion hole (OAH) forming residues; other site 398577010853 trimer interface [polypeptide binding]; other site 398577010854 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 398577010855 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 398577010856 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 398577010857 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398577010858 Cupin; Region: Cupin_6; pfam12852 398577010859 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010860 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577010861 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010862 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010863 putative substrate translocation pore; other site 398577010864 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 398577010865 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 398577010866 tetramer interface [polypeptide binding]; other site 398577010867 active site 398577010868 Mg2+/Mn2+ binding site [ion binding]; other site 398577010869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577010870 Uncharacterized conserved protein [Function unknown]; Region: COG3268 398577010871 NAD(P) binding site [chemical binding]; other site 398577010872 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577010873 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577010874 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577010875 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 398577010876 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577010877 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 398577010878 putative C-terminal domain interface [polypeptide binding]; other site 398577010879 putative GSH binding site (G-site) [chemical binding]; other site 398577010880 putative dimer interface [polypeptide binding]; other site 398577010881 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 398577010882 dimer interface [polypeptide binding]; other site 398577010883 N-terminal domain interface [polypeptide binding]; other site 398577010884 putative substrate binding pocket (H-site) [chemical binding]; other site 398577010885 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 398577010886 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577010887 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577010888 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577010889 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577010890 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398577010891 RHS Repeat; Region: RHS_repeat; pfam05593 398577010892 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 398577010893 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 398577010894 RHS Repeat; Region: RHS_repeat; pfam05593 398577010895 RHS Repeat; Region: RHS_repeat; pfam05593 398577010896 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 398577010897 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 398577010898 RHS Repeat; Region: RHS_repeat; pfam05593 398577010899 RHS Repeat; Region: RHS_repeat; pfam05593 398577010900 RHS protein; Region: RHS; pfam03527 398577010901 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398577010902 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 398577010903 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 398577010904 motif II; other site 398577010905 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 398577010906 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398577010907 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 398577010908 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 398577010909 dimer interface [polypeptide binding]; other site 398577010910 active site 398577010911 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398577010912 substrate binding site [chemical binding]; other site 398577010913 catalytic residue [active] 398577010914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577010915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577010916 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 398577010917 dimerization interface [polypeptide binding]; other site 398577010918 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 398577010919 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 398577010920 Predicted transcriptional regulator [Transcription]; Region: COG1959 398577010921 Transcriptional regulator; Region: Rrf2; pfam02082 398577010922 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 398577010923 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 398577010924 nucleotide binding site [chemical binding]; other site 398577010925 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398577010926 SBD interface [polypeptide binding]; other site 398577010927 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 398577010928 nucleotide binding site [chemical binding]; other site 398577010929 putative NEF/HSP70 interaction site [polypeptide binding]; other site 398577010930 SBD interface [polypeptide binding]; other site 398577010931 DNA-K related protein; Region: DUF3731; pfam12531 398577010932 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 398577010933 Amidinotransferase; Region: Amidinotransf; pfam02274 398577010934 ornithine cyclodeaminase; Validated; Region: PRK07589 398577010935 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398577010936 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577010937 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 398577010938 putative DNA binding site [nucleotide binding]; other site 398577010939 putative Zn2+ binding site [ion binding]; other site 398577010940 AsnC family; Region: AsnC_trans_reg; pfam01037 398577010941 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398577010942 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577010943 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 398577010944 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 398577010945 dimer interface [polypeptide binding]; other site 398577010946 phosphorylation site [posttranslational modification] 398577010947 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 398577010948 ATP binding site [chemical binding]; other site 398577010949 Mg2+ binding site [ion binding]; other site 398577010950 G-X-G motif; other site 398577010951 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577010952 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 398577010953 active site 398577010954 phosphorylation site [posttranslational modification] 398577010955 intermolecular recognition site; other site 398577010956 dimerization interface [polypeptide binding]; other site 398577010957 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 398577010958 DNA binding site [nucleotide binding] 398577010959 NMT1-like family; Region: NMT1_2; pfam13379 398577010960 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398577010961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577010962 D-galactonate transporter; Region: 2A0114; TIGR00893 398577010963 putative substrate translocation pore; other site 398577010964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398577010965 Histidine kinase; Region: HisKA_3; pfam07730 398577010966 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 398577010967 ATP binding site [chemical binding]; other site 398577010968 Mg2+ binding site [ion binding]; other site 398577010969 G-X-G motif; other site 398577010970 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577010971 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 398577010972 active site 398577010973 phosphorylation site [posttranslational modification] 398577010974 intermolecular recognition site; other site 398577010975 dimerization interface [polypeptide binding]; other site 398577010976 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 398577010977 DNA binding residues [nucleotide binding] 398577010978 dimerization interface [polypeptide binding]; other site 398577010979 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398577010980 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 398577010981 active site 398577010982 LssY C-terminus; Region: LssY_C; pfam14067 398577010983 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 398577010984 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 398577010985 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 398577010986 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 398577010987 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398577010988 choline dehydrogenase; Validated; Region: PRK02106 398577010989 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577010990 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577010991 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577010992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577010993 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398577010994 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577010995 Coenzyme A binding pocket [chemical binding]; other site 398577010996 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577010997 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 398577010998 putative DNA binding site [nucleotide binding]; other site 398577010999 putative Zn2+ binding site [ion binding]; other site 398577011000 AsnC family; Region: AsnC_trans_reg; pfam01037 398577011001 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 398577011002 Flavin Reductases; Region: FlaRed; cl00801 398577011003 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398577011004 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 398577011005 active site 398577011006 phosphorylation site [posttranslational modification] 398577011007 intermolecular recognition site; other site 398577011008 dimerization interface [polypeptide binding]; other site 398577011009 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 398577011010 DNA binding residues [nucleotide binding] 398577011011 dimerization interface [polypeptide binding]; other site 398577011012 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398577011013 classical (c) SDRs; Region: SDR_c; cd05233 398577011014 NAD(P) binding site [chemical binding]; other site 398577011015 active site 398577011016 Amidase; Region: Amidase; cl11426 398577011017 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398577011018 Amidase; Region: Amidase; cl11426 398577011019 SnoaL-like domain; Region: SnoaL_4; pfam13577 398577011020 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577011021 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577011022 active site 398577011023 PAS domain; Region: PAS_9; pfam13426 398577011024 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398577011025 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 398577011026 putative active site [active] 398577011027 heme pocket [chemical binding]; other site 398577011028 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 398577011029 dimer interface [polypeptide binding]; other site 398577011030 phosphorylation site [posttranslational modification] 398577011031 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 398577011032 ATP binding site [chemical binding]; other site 398577011033 Mg2+ binding site [ion binding]; other site 398577011034 G-X-G motif; other site 398577011035 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 398577011036 active site 1 [active] 398577011037 dimer interface [polypeptide binding]; other site 398577011038 hexamer interface [polypeptide binding]; other site 398577011039 active site 2 [active] 398577011040 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 398577011041 active site 1 [active] 398577011042 dimer interface [polypeptide binding]; other site 398577011043 hexamer interface [polypeptide binding]; other site 398577011044 active site 2 [active] 398577011045 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 398577011046 inter-subunit interface; other site 398577011047 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398577011048 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 398577011049 [2Fe-2S] cluster binding site [ion binding]; other site 398577011050 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 398577011051 putative alpha subunit interface [polypeptide binding]; other site 398577011052 putative active site [active] 398577011053 putative substrate binding site [chemical binding]; other site 398577011054 Fe binding site [ion binding]; other site 398577011055 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 398577011056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011057 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 398577011058 substrate binding pocket [chemical binding]; other site 398577011059 dimerization interface [polypeptide binding]; other site 398577011060 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398577011061 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 398577011062 FMN-binding pocket [chemical binding]; other site 398577011063 flavin binding motif; other site 398577011064 phosphate binding motif [ion binding]; other site 398577011065 beta-alpha-beta structure motif; other site 398577011066 NAD binding pocket [chemical binding]; other site 398577011067 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 398577011068 catalytic loop [active] 398577011069 iron binding site [ion binding]; other site 398577011070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011071 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577011072 putative substrate translocation pore; other site 398577011073 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577011074 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 398577011075 trimer interface [polypeptide binding]; other site 398577011076 eyelet of channel; other site 398577011077 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577011078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011079 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 398577011080 dimerization interface [polypeptide binding]; other site 398577011081 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577011082 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398577011083 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 398577011084 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398577011085 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08269 398577011086 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577011087 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577011088 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011089 putative substrate translocation pore; other site 398577011090 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398577011091 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398577011092 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577011093 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 398577011094 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577011095 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398577011096 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 398577011097 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398577011098 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 398577011099 dimer interface [polypeptide binding]; other site 398577011100 conserved gate region; other site 398577011101 putative PBP binding loops; other site 398577011102 ABC-ATPase subunit interface; other site 398577011103 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 398577011104 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 398577011105 dimer interface [polypeptide binding]; other site 398577011106 conserved gate region; other site 398577011107 putative PBP binding loops; other site 398577011108 ABC-ATPase subunit interface; other site 398577011109 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398577011110 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577011111 Walker A/P-loop; other site 398577011112 ATP binding site [chemical binding]; other site 398577011113 Q-loop/lid; other site 398577011114 ABC transporter signature motif; other site 398577011115 Walker B; other site 398577011116 D-loop; other site 398577011117 H-loop/switch region; other site 398577011118 TOBE domain; Region: TOBE_2; pfam08402 398577011119 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577011120 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 398577011121 dimerization interface [polypeptide binding]; other site 398577011122 putative Zn2+ binding site [ion binding]; other site 398577011123 putative DNA binding site [nucleotide binding]; other site 398577011124 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577011125 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 398577011126 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398577011127 HAMP domain; Region: HAMP; pfam00672 398577011128 dimerization interface [polypeptide binding]; other site 398577011129 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577011130 dimer interface [polypeptide binding]; other site 398577011131 putative CheW interface [polypeptide binding]; other site 398577011132 Phosphoesterase family; Region: Phosphoesterase; pfam04185 398577011133 putative cyanate transporter; Provisional; Region: cynX; PRK09705 398577011134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011135 putative substrate translocation pore; other site 398577011136 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577011137 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 398577011138 salt bridge; other site 398577011139 non-specific DNA binding site [nucleotide binding]; other site 398577011140 sequence-specific DNA binding site [nucleotide binding]; other site 398577011141 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 398577011142 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577011143 putative NAD(P) binding site [chemical binding]; other site 398577011144 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398577011145 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398577011146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011147 mercuric reductase; Validated; Region: PRK06370 398577011148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577011149 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398577011150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011151 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 398577011152 dimerization interface [polypeptide binding]; other site 398577011153 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398577011154 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 398577011155 putative active site pocket [active] 398577011156 metal binding site [ion binding]; metal-binding site 398577011157 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577011158 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 398577011159 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577011160 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 398577011161 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 398577011162 Domain of unknown function (DUF802); Region: DUF802; pfam05650 398577011163 Domain of unknown function (DUF802); Region: DUF802; pfam05650 398577011164 hypothetical protein; Provisional; Region: PRK09040 398577011165 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577011166 ligand binding site [chemical binding]; other site 398577011167 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 398577011168 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577011169 Predicted flavoprotein [General function prediction only]; Region: COG0431 398577011170 Phospholipid methyltransferase; Region: PEMT; cl17370 398577011171 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398577011172 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577011173 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 398577011174 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 398577011175 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 398577011176 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 398577011177 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398577011178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577011179 NAD(P) binding site [chemical binding]; other site 398577011180 active site 398577011181 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577011182 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577011183 Fungal fucose-specific lectin; Region: Fungal_lectin; pfam07938 398577011184 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577011185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011186 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 398577011187 putative effector binding pocket; other site 398577011188 dimerization interface [polypeptide binding]; other site 398577011189 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 398577011190 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577011191 putative C-terminal domain interface [polypeptide binding]; other site 398577011192 putative GSH binding site (G-site) [chemical binding]; other site 398577011193 putative dimer interface [polypeptide binding]; other site 398577011194 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 398577011195 putative N-terminal domain interface [polypeptide binding]; other site 398577011196 putative dimer interface [polypeptide binding]; other site 398577011197 putative substrate binding pocket (H-site) [chemical binding]; other site 398577011198 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 398577011199 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398577011200 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 398577011201 FAD binding pocket [chemical binding]; other site 398577011202 FAD binding motif [chemical binding]; other site 398577011203 phosphate binding motif [ion binding]; other site 398577011204 beta-alpha-beta structure motif; other site 398577011205 NAD binding pocket [chemical binding]; other site 398577011206 Heme binding pocket [chemical binding]; other site 398577011207 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 398577011208 catalytic loop [active] 398577011209 iron binding site [ion binding]; other site 398577011210 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 398577011211 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398577011212 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 398577011213 N-terminal plug; other site 398577011214 ligand-binding site [chemical binding]; other site 398577011215 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 398577011216 Phosphotransferase enzyme family; Region: APH; pfam01636 398577011217 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 398577011218 active site 398577011219 ATP binding site [chemical binding]; other site 398577011220 substrate binding site [chemical binding]; other site 398577011221 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577011222 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577011223 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577011224 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398577011225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577011226 NAD(P) binding site [chemical binding]; other site 398577011227 active site 398577011228 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 398577011229 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 398577011230 homodimer interface [polypeptide binding]; other site 398577011231 substrate-cofactor binding pocket; other site 398577011232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577011233 catalytic residue [active] 398577011234 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 398577011235 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 398577011236 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 398577011237 hypothetical protein; Reviewed; Region: PRK09588 398577011238 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 398577011239 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 398577011240 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 398577011241 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 398577011242 Walker A motif; other site 398577011243 ATP binding site [chemical binding]; other site 398577011244 Walker B motif; other site 398577011245 arginine finger; other site 398577011246 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398577011247 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 398577011248 S-adenosylmethionine binding site [chemical binding]; other site 398577011249 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577011250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011251 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 398577011252 putative effector binding pocket; other site 398577011253 putative dimerization interface [polypeptide binding]; other site 398577011254 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 398577011255 tartrate dehydrogenase; Region: TTC; TIGR02089 398577011256 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398577011257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011258 putative substrate translocation pore; other site 398577011259 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 398577011260 active site 398577011261 argininosuccinate synthase; Validated; Region: PRK05370 398577011262 argininosuccinate synthase; Provisional; Region: PRK13820 398577011263 Predicted membrane protein [Function unknown]; Region: COG1289 398577011264 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 398577011265 Cache domain; Region: Cache_1; pfam02743 398577011266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577011267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577011268 metal binding site [ion binding]; metal-binding site 398577011269 active site 398577011270 I-site; other site 398577011271 lysine transporter; Provisional; Region: PRK10836 398577011272 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 398577011273 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398577011274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011275 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 398577011276 dimerizarion interface [polypeptide binding]; other site 398577011277 CrgA pocket; other site 398577011278 substrate binding pocket [chemical binding]; other site 398577011279 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577011280 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577011281 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577011282 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 398577011283 homodimer interface [polypeptide binding]; other site 398577011284 active site 398577011285 TDP-binding site; other site 398577011286 acceptor substrate-binding pocket; other site 398577011287 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 398577011288 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577011289 DNA-binding site [nucleotide binding]; DNA binding site 398577011290 UTRA domain; Region: UTRA; pfam07702 398577011291 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577011292 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 398577011293 dimer interface [polypeptide binding]; other site 398577011294 conserved gate region; other site 398577011295 putative PBP binding loops; other site 398577011296 ABC-ATPase subunit interface; other site 398577011297 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577011298 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 398577011299 dimer interface [polypeptide binding]; other site 398577011300 conserved gate region; other site 398577011301 putative PBP binding loops; other site 398577011302 ABC-ATPase subunit interface; other site 398577011303 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 398577011304 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577011305 Walker A/P-loop; other site 398577011306 ATP binding site [chemical binding]; other site 398577011307 Q-loop/lid; other site 398577011308 ABC transporter signature motif; other site 398577011309 Walker B; other site 398577011310 D-loop; other site 398577011311 H-loop/switch region; other site 398577011312 Cupin domain; Region: Cupin_2; cl17218 398577011313 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 398577011314 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 398577011315 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 398577011316 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 398577011317 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577011318 putative C-terminal domain interface [polypeptide binding]; other site 398577011319 putative GSH binding site (G-site) [chemical binding]; other site 398577011320 putative dimer interface [polypeptide binding]; other site 398577011321 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 398577011322 putative N-terminal domain interface [polypeptide binding]; other site 398577011323 putative dimer interface [polypeptide binding]; other site 398577011324 putative substrate binding pocket (H-site) [chemical binding]; other site 398577011325 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 398577011326 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398577011327 ligand binding site [chemical binding]; other site 398577011328 flexible hinge region; other site 398577011329 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 398577011330 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 398577011331 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 398577011332 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577011333 ligand binding site [chemical binding]; other site 398577011334 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 398577011335 dimerization interface [polypeptide binding]; other site 398577011336 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398577011337 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577011338 dimer interface [polypeptide binding]; other site 398577011339 putative CheW interface [polypeptide binding]; other site 398577011340 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 398577011341 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 398577011342 active site 398577011343 homodimer interface [polypeptide binding]; other site 398577011344 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 398577011345 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 398577011346 DXD motif; other site 398577011347 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 398577011348 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u2; cd10926 398577011349 putative active site [active] 398577011350 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398577011351 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 398577011352 glutaminase active site [active] 398577011353 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 398577011354 dimer interface [polypeptide binding]; other site 398577011355 active site 398577011356 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 398577011357 dimer interface [polypeptide binding]; other site 398577011358 active site 398577011359 TIGR02594 family protein; Region: TIGR02594 398577011360 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398577011361 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577011362 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011363 putative substrate translocation pore; other site 398577011364 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011365 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 398577011366 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577011367 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577011368 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398577011369 MarR family; Region: MarR_2; pfam12802 398577011370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577011371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011372 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 398577011373 putative effector binding pocket; other site 398577011374 dimerization interface [polypeptide binding]; other site 398577011375 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398577011376 MarR family; Region: MarR_2; pfam12802 398577011377 Protein of unknown function (DUF521); Region: DUF521; pfam04412 398577011378 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 398577011379 substrate binding site [chemical binding]; other site 398577011380 ligand binding site [chemical binding]; other site 398577011381 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 398577011382 substrate binding site [chemical binding]; other site 398577011383 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577011384 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577011385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577011386 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398577011387 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 398577011388 active site 398577011389 FMN binding site [chemical binding]; other site 398577011390 2,4-decadienoyl-CoA binding site; other site 398577011391 catalytic residue [active] 398577011392 4Fe-4S cluster binding site [ion binding]; other site 398577011393 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 398577011394 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577011395 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 398577011396 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577011397 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011398 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 398577011399 putative substrate binding pocket [chemical binding]; other site 398577011400 putative dimerization interface [polypeptide binding]; other site 398577011401 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 398577011402 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577011403 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 398577011404 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 398577011405 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 398577011406 Walker A motif; other site 398577011407 ATP binding site [chemical binding]; other site 398577011408 Walker B motif; other site 398577011409 arginine finger; other site 398577011410 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 398577011411 Walker A motif; other site 398577011412 ATP binding site [chemical binding]; other site 398577011413 Walker B motif; other site 398577011414 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 398577011415 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 398577011416 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398577011417 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577011418 ligand binding site [chemical binding]; other site 398577011419 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 398577011420 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 398577011421 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 398577011422 Protein of unknown function (DUF770); Region: DUF770; pfam05591 398577011423 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 398577011424 Protein of unknown function (DUF877); Region: DUF877; pfam05943 398577011425 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 398577011426 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577011427 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577011428 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577011429 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577011430 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 398577011431 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 398577011432 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 398577011433 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 398577011434 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 398577011435 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398577011436 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 398577011437 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 398577011438 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 398577011439 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 398577011440 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 398577011441 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 398577011442 dimer interface [polypeptide binding]; other site 398577011443 active site 398577011444 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 398577011445 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 398577011446 octamer interface [polypeptide binding]; other site 398577011447 active site 398577011448 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398577011449 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011450 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 398577011451 dimerizarion interface [polypeptide binding]; other site 398577011452 CrgA pocket; other site 398577011453 substrate binding pocket [chemical binding]; other site 398577011454 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398577011455 Tar ligand binding domain homologue; Region: TarH; pfam02203 398577011456 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398577011457 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 398577011458 dimerization interface [polypeptide binding]; other site 398577011459 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577011460 dimer interface [polypeptide binding]; other site 398577011461 putative CheW interface [polypeptide binding]; other site 398577011462 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577011463 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577011464 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 398577011465 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 398577011466 putative alpha subunit interface [polypeptide binding]; other site 398577011467 putative active site [active] 398577011468 putative substrate binding site [chemical binding]; other site 398577011469 Fe binding site [ion binding]; other site 398577011470 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 398577011471 inter-subunit interface; other site 398577011472 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 398577011473 [2Fe-2S] cluster binding site [ion binding]; other site 398577011474 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 398577011475 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577011476 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577011477 Protein of unknown function (DUF445); Region: DUF445; pfam04286 398577011478 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 398577011479 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 398577011480 acetolactate synthase; Reviewed; Region: PRK08322 398577011481 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398577011482 PYR/PP interface [polypeptide binding]; other site 398577011483 dimer interface [polypeptide binding]; other site 398577011484 TPP binding site [chemical binding]; other site 398577011485 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398577011486 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 398577011487 TPP-binding site [chemical binding]; other site 398577011488 dimer interface [polypeptide binding]; other site 398577011489 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 398577011490 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 398577011491 NAD(P) binding site [chemical binding]; other site 398577011492 catalytic residues [active] 398577011493 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398577011494 Response regulator receiver domain; Region: Response_reg; pfam00072 398577011495 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 398577011496 active site 398577011497 phosphorylation site [posttranslational modification] 398577011498 intermolecular recognition site; other site 398577011499 dimerization interface [polypeptide binding]; other site 398577011500 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577011501 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 398577011502 dimer interface [polypeptide binding]; other site 398577011503 phosphorylation site [posttranslational modification] 398577011504 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 398577011505 Mg2+ binding site [ion binding]; other site 398577011506 G-X-G motif; other site 398577011507 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398577011508 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 398577011509 dimerization interface [polypeptide binding]; other site 398577011510 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398577011511 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577011512 dimer interface [polypeptide binding]; other site 398577011513 putative CheW interface [polypeptide binding]; other site 398577011514 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 398577011515 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 398577011516 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 398577011517 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398577011518 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 398577011519 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 398577011520 putative binding surface; other site 398577011521 active site 398577011522 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 398577011523 ATP binding site [chemical binding]; other site 398577011524 Mg2+ binding site [ion binding]; other site 398577011525 G-X-G motif; other site 398577011526 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 398577011527 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 398577011528 Response regulator receiver domain; Region: Response_reg; pfam00072 398577011529 active site 398577011530 phosphorylation site [posttranslational modification] 398577011531 intermolecular recognition site; other site 398577011532 dimerization interface [polypeptide binding]; other site 398577011533 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 398577011534 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 398577011535 active site 398577011536 phosphorylation site [posttranslational modification] 398577011537 intermolecular recognition site; other site 398577011538 CheB methylesterase; Region: CheB_methylest; pfam01339 398577011539 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 398577011540 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 398577011541 putative Cl- selectivity filter; other site 398577011542 putative pore gating glutamate residue; other site 398577011543 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 398577011544 Lumazine binding domain; Region: Lum_binding; pfam00677 398577011545 Lumazine binding domain; Region: Lum_binding; pfam00677 398577011546 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398577011547 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 398577011548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577011549 Walker A/P-loop; other site 398577011550 ATP binding site [chemical binding]; other site 398577011551 Q-loop/lid; other site 398577011552 ABC transporter signature motif; other site 398577011553 Walker B; other site 398577011554 D-loop; other site 398577011555 H-loop/switch region; other site 398577011556 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 398577011557 OsmC-like protein; Region: OsmC; pfam02566 398577011558 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577011559 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011560 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 398577011561 substrate binding pocket [chemical binding]; other site 398577011562 dimerization interface [polypeptide binding]; other site 398577011563 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 398577011564 Bacterial sugar transferase; Region: Bac_transf; pfam02397 398577011565 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398577011566 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 398577011567 SLBB domain; Region: SLBB; pfam10531 398577011568 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 398577011569 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398577011570 active site 398577011571 Chain length determinant protein; Region: Wzz; pfam02706 398577011572 tyrosine kinase; Provisional; Region: PRK11519 398577011573 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 398577011574 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 398577011575 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 398577011576 active site 398577011577 homodimer interface [polypeptide binding]; other site 398577011578 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 398577011579 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398577011580 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 398577011581 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 398577011582 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 398577011583 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 398577011584 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577011585 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_4; cd03795 398577011586 putative ADP-binding pocket [chemical binding]; other site 398577011587 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 398577011588 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 398577011589 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 398577011590 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 398577011591 manganese transport protein MntH; Reviewed; Region: PRK00701 398577011592 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398577011593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577011594 short chain dehydrogenase; Validated; Region: PRK07069 398577011595 NAD(P) binding site [chemical binding]; other site 398577011596 active site 398577011597 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 398577011598 Prostaglandin dehydrogenases; Region: PGDH; cd05288 398577011599 NAD(P) binding site [chemical binding]; other site 398577011600 substrate binding site [chemical binding]; other site 398577011601 dimer interface [polypeptide binding]; other site 398577011602 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398577011603 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398577011604 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 398577011605 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 398577011606 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 398577011607 generic binding surface I; other site 398577011608 generic binding surface II; other site 398577011609 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 398577011610 putative active site [active] 398577011611 putative catalytic site [active] 398577011612 putative Mg binding site IVb [ion binding]; other site 398577011613 putative phosphate binding site [ion binding]; other site 398577011614 putative DNA binding site [nucleotide binding]; other site 398577011615 putative Mg binding site IVa [ion binding]; other site 398577011616 YCII-related domain; Region: YCII; cl00999 398577011617 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 398577011618 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 398577011619 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 398577011620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577011621 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 398577011622 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 398577011623 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 398577011624 haemagglutination activity domain; Region: Haemagg_act; pfam05860 398577011625 haemagglutination activity domain; Region: Haemagg_act; pfam05860 398577011626 Rubrerythrin [Energy production and conversion]; Region: COG1592 398577011627 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 398577011628 binuclear metal center [ion binding]; other site 398577011629 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398577011630 Cysteine-rich domain; Region: CCG; pfam02754 398577011631 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 398577011632 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398577011633 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 398577011634 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 398577011635 Substrate binding site; other site 398577011636 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 398577011637 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 398577011638 Bacterial sugar transferase; Region: Bac_transf; pfam02397 398577011639 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 398577011640 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 398577011641 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 398577011642 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 398577011643 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398577011644 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398577011645 active site 398577011646 polysaccharide export protein Wza; Provisional; Region: PRK15078 398577011647 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398577011648 SLBB domain; Region: SLBB; pfam10531 398577011649 SLBB domain; Region: SLBB; pfam10531 398577011650 tyrosine kinase; Provisional; Region: PRK11519 398577011651 Chain length determinant protein; Region: Wzz; pfam02706 398577011652 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 398577011653 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 398577011654 P-loop; other site 398577011655 Magnesium ion binding site [ion binding]; other site 398577011656 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398577011657 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 398577011658 active site 398577011659 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 398577011660 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577011661 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 398577011662 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 398577011663 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577011664 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 398577011665 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398577011666 Predicted transcriptional regulators [Transcription]; Region: COG1733 398577011667 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 398577011668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577011669 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577011670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577011671 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 398577011672 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 398577011673 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 398577011674 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 398577011675 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 398577011676 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 398577011677 Walker A motif; other site 398577011678 ATP binding site [chemical binding]; other site 398577011679 Walker B motif; other site 398577011680 arginine finger; other site 398577011681 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577011682 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398577011683 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 398577011684 substrate binding pocket [chemical binding]; other site 398577011685 membrane-bound complex binding site; other site 398577011686 hinge residues; other site 398577011687 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 398577011688 RES domain; Region: RES; smart00953 398577011689 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398577011690 active site 398577011691 metal binding site [ion binding]; metal-binding site 398577011692 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 398577011693 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577011694 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 398577011695 putative C-terminal domain interface [polypeptide binding]; other site 398577011696 putative GSH binding site (G-site) [chemical binding]; other site 398577011697 putative dimer interface [polypeptide binding]; other site 398577011698 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 398577011699 putative N-terminal domain interface [polypeptide binding]; other site 398577011700 putative dimer interface [polypeptide binding]; other site 398577011701 putative substrate binding pocket (H-site) [chemical binding]; other site 398577011702 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398577011703 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 398577011704 S-adenosylmethionine binding site [chemical binding]; other site 398577011705 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 398577011706 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 398577011707 active site 398577011708 catalytic site [active] 398577011709 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 398577011710 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 398577011711 thiamine phosphate binding site [chemical binding]; other site 398577011712 active site 398577011713 pyrophosphate binding site [ion binding]; other site 398577011714 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 398577011715 Domain of unknown function DUF21; Region: DUF21; pfam01595 398577011716 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 398577011717 Transporter associated domain; Region: CorC_HlyC; smart01091 398577011718 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 398577011719 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577011720 dimer interface [polypeptide binding]; other site 398577011721 phosphorylation site [posttranslational modification] 398577011722 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398577011723 EamA-like transporter family; Region: EamA; pfam00892 398577011724 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577011725 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011726 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 398577011727 dimerization interface [polypeptide binding]; other site 398577011728 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 398577011729 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 398577011730 dimer interface [polypeptide binding]; other site 398577011731 hexamer interface [polypeptide binding]; other site 398577011732 active site 2 [active] 398577011733 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 398577011734 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 398577011735 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 398577011736 TOBE domain; Region: TOBE; cl01440 398577011737 molybdenum-pterin binding domain; Region: Mop; TIGR00638 398577011738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577011739 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 398577011740 Walker A/P-loop; other site 398577011741 ATP binding site [chemical binding]; other site 398577011742 Q-loop/lid; other site 398577011743 ABC transporter signature motif; other site 398577011744 Walker B; other site 398577011745 D-loop; other site 398577011746 H-loop/switch region; other site 398577011747 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 398577011748 putative PBP binding loops; other site 398577011749 dimer interface [polypeptide binding]; other site 398577011750 ABC-ATPase subunit interface; other site 398577011751 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398577011752 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398577011753 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 398577011754 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 398577011755 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 398577011756 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577011757 MarR family; Region: MarR; pfam01047 398577011758 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 398577011759 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 398577011760 putative active site [active] 398577011761 putative substrate binding site [chemical binding]; other site 398577011762 ATP binding site [chemical binding]; other site 398577011763 AMP nucleosidase; Provisional; Region: PRK08292 398577011764 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 398577011765 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 398577011766 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 398577011767 DNA polymerase I; Provisional; Region: PRK05755 398577011768 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 398577011769 active site 398577011770 metal binding site 1 [ion binding]; metal-binding site 398577011771 putative 5' ssDNA interaction site; other site 398577011772 metal binding site 3; metal-binding site 398577011773 metal binding site 2 [ion binding]; metal-binding site 398577011774 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 398577011775 putative DNA binding site [nucleotide binding]; other site 398577011776 putative metal binding site [ion binding]; other site 398577011777 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 398577011778 active site 398577011779 catalytic site [active] 398577011780 substrate binding site [chemical binding]; other site 398577011781 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 398577011782 active site 398577011783 DNA binding site [nucleotide binding] 398577011784 catalytic site [active] 398577011785 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398577011786 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577011787 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398577011788 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 398577011789 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 398577011790 active site residue [active] 398577011791 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 398577011792 active site residue [active] 398577011793 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398577011794 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 398577011795 [2Fe-2S] cluster binding site [ion binding]; other site 398577011796 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 398577011797 alpha subunit interface [polypeptide binding]; other site 398577011798 active site 398577011799 substrate binding site [chemical binding]; other site 398577011800 Fe binding site [ion binding]; other site 398577011801 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 398577011802 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 398577011803 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 398577011804 substrate binding pocket [chemical binding]; other site 398577011805 chain length determination region; other site 398577011806 substrate-Mg2+ binding site; other site 398577011807 catalytic residues [active] 398577011808 aspartate-rich region 1; other site 398577011809 active site lid residues [active] 398577011810 aspartate-rich region 2; other site 398577011811 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 398577011812 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 398577011813 TPP-binding site; other site 398577011814 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 398577011815 PYR/PP interface [polypeptide binding]; other site 398577011816 dimer interface [polypeptide binding]; other site 398577011817 TPP binding site [chemical binding]; other site 398577011818 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398577011819 putative GTP cyclohydrolase; Provisional; Region: PRK13674 398577011820 UGMP family protein; Validated; Region: PRK09604 398577011821 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 398577011822 Predicted flavoproteins [General function prediction only]; Region: COG2081 398577011823 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 398577011824 Yqey-like protein; Region: YqeY; pfam09424 398577011825 DNA primase; Validated; Region: dnaG; PRK05667 398577011826 CHC2 zinc finger; Region: zf-CHC2; pfam01807 398577011827 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 398577011828 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 398577011829 active site 398577011830 metal binding site [ion binding]; metal-binding site 398577011831 interdomain interaction site; other site 398577011832 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 398577011833 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 398577011834 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 398577011835 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 398577011836 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398577011837 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 398577011838 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577011839 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398577011840 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 398577011841 DNA binding residues [nucleotide binding] 398577011842 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 398577011843 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 398577011844 Walker A motif; other site 398577011845 ATP binding site [chemical binding]; other site 398577011846 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 398577011847 AAA domain; Region: AAA_30; pfam13604 398577011848 AAA domain; Region: AAA_12; pfam13087 398577011849 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 398577011850 putative active site [active] 398577011851 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 398577011852 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 398577011853 phosphatidate cytidylyltransferase; Region: PLN02953 398577011854 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 398577011855 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398577011856 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 398577011857 classical (c) SDRs; Region: SDR_c; cd05233 398577011858 NAD(P) binding site [chemical binding]; other site 398577011859 active site 398577011860 Creatinine amidohydrolase; Region: Creatininase; pfam02633 398577011861 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011862 D-galactonate transporter; Region: 2A0114; TIGR00893 398577011863 putative substrate translocation pore; other site 398577011864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577011865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577011866 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 398577011867 dimerization interface [polypeptide binding]; other site 398577011868 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398577011869 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 398577011870 putative active site [active] 398577011871 catalytic site [active] 398577011872 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 398577011873 putative active site [active] 398577011874 catalytic site [active] 398577011875 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 398577011876 peptidase domain interface [polypeptide binding]; other site 398577011877 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 398577011878 active site 398577011879 catalytic triad [active] 398577011880 calcium binding site [ion binding]; other site 398577011881 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577011882 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577011883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011884 putative substrate translocation pore; other site 398577011885 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011886 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 398577011887 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577011888 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577011889 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 398577011890 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577011891 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 398577011892 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398577011893 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 398577011894 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398577011895 NAD-dependent deacetylase; Provisional; Region: PRK05333 398577011896 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 398577011897 NAD+ binding site [chemical binding]; other site 398577011898 substrate binding site [chemical binding]; other site 398577011899 Zn binding site [ion binding]; other site 398577011900 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398577011901 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 398577011902 S-adenosylmethionine binding site [chemical binding]; other site 398577011903 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398577011904 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 398577011905 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 398577011906 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577011907 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 398577011908 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577011909 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 398577011910 E3 interaction surface; other site 398577011911 lipoyl attachment site [posttranslational modification]; other site 398577011912 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 398577011913 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 398577011914 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 398577011915 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 398577011916 N-terminal plug; other site 398577011917 ligand-binding site [chemical binding]; other site 398577011918 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 398577011919 Lipase (class 2); Region: Lipase_2; pfam01674 398577011920 PGAP1-like protein; Region: PGAP1; pfam07819 398577011921 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 398577011922 lipase chaperone; Provisional; Region: PRK01294 398577011923 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 398577011924 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577011925 DNA-binding site [nucleotide binding]; DNA binding site 398577011926 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 398577011927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577011928 homodimer interface [polypeptide binding]; other site 398577011929 catalytic residue [active] 398577011930 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398577011931 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 398577011932 Walker A/P-loop; other site 398577011933 ATP binding site [chemical binding]; other site 398577011934 Q-loop/lid; other site 398577011935 ABC transporter signature motif; other site 398577011936 Walker B; other site 398577011937 D-loop; other site 398577011938 H-loop/switch region; other site 398577011939 TOBE domain; Region: TOBE_2; pfam08402 398577011940 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 398577011941 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398577011942 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 398577011943 dimer interface [polypeptide binding]; other site 398577011944 conserved gate region; other site 398577011945 putative PBP binding loops; other site 398577011946 ABC-ATPase subunit interface; other site 398577011947 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398577011948 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 398577011949 dimer interface [polypeptide binding]; other site 398577011950 conserved gate region; other site 398577011951 putative PBP binding loops; other site 398577011952 ABC-ATPase subunit interface; other site 398577011953 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577011954 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011955 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577011956 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 398577011957 peptidase domain interface [polypeptide binding]; other site 398577011958 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 398577011959 active site 398577011960 catalytic triad [active] 398577011961 calcium binding site [ion binding]; other site 398577011962 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 398577011963 dimerization interface [polypeptide binding]; other site 398577011964 putative DNA binding site [nucleotide binding]; other site 398577011965 putative Zn2+ binding site [ion binding]; other site 398577011966 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 398577011967 putative hydrophobic ligand binding site [chemical binding]; other site 398577011968 Domain of unknown function (DU1801); Region: DUF1801; cl17490 398577011969 aconitate hydratase; Provisional; Region: acnA; PRK12881 398577011970 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 398577011971 substrate binding site [chemical binding]; other site 398577011972 ligand binding site [chemical binding]; other site 398577011973 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 398577011974 substrate binding site [chemical binding]; other site 398577011975 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 398577011976 2-methylcitrate dehydratase; Region: prpD; TIGR02330 398577011977 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 398577011978 malate dehydrogenase; Provisional; Region: PRK05442 398577011979 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 398577011980 NAD(P) binding site [chemical binding]; other site 398577011981 dimer interface [polypeptide binding]; other site 398577011982 malate binding site [chemical binding]; other site 398577011983 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 398577011984 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577011985 DNA-binding site [nucleotide binding]; DNA binding site 398577011986 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 398577011987 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 398577011988 Iron-sulfur protein interface; other site 398577011989 proximal quinone binding site [chemical binding]; other site 398577011990 SdhD (CybS) interface [polypeptide binding]; other site 398577011991 proximal heme binding site [chemical binding]; other site 398577011992 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 398577011993 SdhC subunit interface [polypeptide binding]; other site 398577011994 proximal heme binding site [chemical binding]; other site 398577011995 cardiolipin binding site; other site 398577011996 Iron-sulfur protein interface; other site 398577011997 proximal quinone binding site [chemical binding]; other site 398577011998 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 398577011999 L-aspartate oxidase; Provisional; Region: PRK06175 398577012000 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 398577012001 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 398577012002 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 398577012003 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 398577012004 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 398577012005 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 398577012006 dimer interface [polypeptide binding]; other site 398577012007 active site 398577012008 citrylCoA binding site [chemical binding]; other site 398577012009 NADH binding [chemical binding]; other site 398577012010 cationic pore residues; other site 398577012011 oxalacetate/citrate binding site [chemical binding]; other site 398577012012 coenzyme A binding site [chemical binding]; other site 398577012013 catalytic triad [active] 398577012014 Cupin domain; Region: Cupin_2; cl17218 398577012015 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577012016 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577012017 Probable transposase; Region: OrfB_IS605; pfam01385 398577012018 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577012019 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577012020 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 398577012021 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577012022 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 398577012023 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 398577012024 Amidinotransferase; Region: Amidinotransf; cl12043 398577012025 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577012026 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 398577012027 AsnC family; Region: AsnC_trans_reg; pfam01037 398577012028 lysine transporter; Provisional; Region: PRK10836 398577012029 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 398577012030 GSH binding site (G-site) [chemical binding]; other site 398577012031 C-terminal domain interface [polypeptide binding]; other site 398577012032 dimer interface [polypeptide binding]; other site 398577012033 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 398577012034 dimer interface [polypeptide binding]; other site 398577012035 N-terminal domain interface [polypeptide binding]; other site 398577012036 substrate binding pocket (H-site) [chemical binding]; other site 398577012037 Cupin domain; Region: Cupin_2; cl17218 398577012038 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 398577012039 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 398577012040 substrate binding site [chemical binding]; other site 398577012041 ligand binding site [chemical binding]; other site 398577012042 Entericidin EcnA/B family; Region: Entericidin; cl02322 398577012043 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 398577012044 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 398577012045 substrate binding site [chemical binding]; other site 398577012046 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 398577012047 tartrate dehydrogenase; Region: TTC; TIGR02089 398577012048 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 398577012049 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 398577012050 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 398577012051 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 398577012052 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 398577012053 dimerization interface 3.5A [polypeptide binding]; other site 398577012054 active site 398577012055 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 398577012056 active site 398577012057 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 398577012058 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 398577012059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577012060 catalytic residue [active] 398577012061 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 398577012062 DNA methylase; Region: N6_N4_Mtase; pfam01555 398577012063 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 398577012064 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 398577012065 substrate binding site [chemical binding]; other site 398577012066 active site 398577012067 catalytic residues [active] 398577012068 heterodimer interface [polypeptide binding]; other site 398577012069 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 398577012070 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 398577012071 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 398577012072 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 398577012073 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 398577012074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 398577012075 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 398577012076 Colicin V production protein; Region: Colicin_V; pfam02674 398577012077 amidophosphoribosyltransferase; Provisional; Region: PRK09246 398577012078 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 398577012079 active site 398577012080 tetramer interface [polypeptide binding]; other site 398577012081 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 398577012082 active site 398577012083 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 398577012084 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 398577012085 homodimer interface [polypeptide binding]; other site 398577012086 substrate-cofactor binding pocket; other site 398577012087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577012088 catalytic residue [active] 398577012089 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577012090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577012091 NAD(P) binding site [chemical binding]; other site 398577012092 active site 398577012093 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 398577012094 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 398577012095 NADP-binding site; other site 398577012096 homotetramer interface [polypeptide binding]; other site 398577012097 substrate binding site [chemical binding]; other site 398577012098 homodimer interface [polypeptide binding]; other site 398577012099 active site 398577012100 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398577012101 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 398577012102 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 398577012103 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577012104 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 398577012105 putative ADP-binding pocket [chemical binding]; other site 398577012106 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 398577012107 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577012108 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398577012109 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398577012110 active site 398577012111 tetramer interface; other site 398577012112 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398577012113 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; cl00257 398577012114 aminoglycoside resistance protein; Provisional; Region: PRK13746 398577012115 aminoglycoside resistance protein; Provisional; Region: PRK13746 398577012116 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 398577012117 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 398577012118 dimer interface [polypeptide binding]; other site 398577012119 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577012120 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 398577012121 trimer interface [polypeptide binding]; other site 398577012122 eyelet of channel; other site 398577012123 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 398577012124 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 398577012125 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 398577012126 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 398577012127 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 398577012128 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 398577012129 molybdopterin cofactor binding site; other site 398577012130 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 398577012131 4Fe-4S binding domain; Region: Fer4; cl02805 398577012132 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 398577012133 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 398577012134 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 398577012135 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 398577012136 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 398577012137 selenocysteine synthase; Provisional; Region: PRK04311 398577012138 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 398577012139 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 398577012140 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577012141 catalytic residue [active] 398577012142 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 398577012143 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 398577012144 G1 box; other site 398577012145 putative GEF interaction site [polypeptide binding]; other site 398577012146 GTP/Mg2+ binding site [chemical binding]; other site 398577012147 Switch I region; other site 398577012148 G2 box; other site 398577012149 G3 box; other site 398577012150 Switch II region; other site 398577012151 G4 box; other site 398577012152 G5 box; other site 398577012153 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 398577012154 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 398577012155 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 398577012156 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 398577012157 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398577012158 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 398577012159 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 398577012160 Putative glucoamylase; Region: Glycoamylase; pfam10091 398577012161 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 398577012162 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 398577012163 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 398577012164 Fatty acid desaturase; Region: FA_desaturase; pfam00487 398577012165 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 398577012166 Di-iron ligands [ion binding]; other site 398577012167 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 398577012168 Transposase; Region: DDE_Tnp_ISL3; pfam01610 398577012169 CsbD-like; Region: CsbD; pfam05532 398577012170 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398577012171 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398577012172 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398577012173 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 398577012174 ligand binding site [chemical binding]; other site 398577012175 flexible hinge region; other site 398577012176 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 398577012177 PRC-barrel domain; Region: PRC; pfam05239 398577012178 PRC-barrel domain; Region: PRC; pfam05239 398577012179 PAS fold; Region: PAS_3; pfam08447 398577012180 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577012181 metal binding site [ion binding]; metal-binding site 398577012182 active site 398577012183 I-site; other site 398577012184 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 398577012185 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 398577012186 short chain dehydrogenase; Provisional; Region: PRK06180 398577012187 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398577012188 NADP binding site [chemical binding]; other site 398577012189 active site 398577012190 steroid binding site; other site 398577012191 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398577012192 classical (c) SDRs; Region: SDR_c; cd05233 398577012193 NAD(P) binding site [chemical binding]; other site 398577012194 active site 398577012195 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398577012196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577012197 NAD(P) binding site [chemical binding]; other site 398577012198 active site 398577012199 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 398577012200 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577012201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577012202 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 398577012203 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 398577012204 nudix motif; other site 398577012205 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 398577012206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577012207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012208 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 398577012209 putative substrate binding pocket [chemical binding]; other site 398577012210 putative dimerization interface [polypeptide binding]; other site 398577012211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577012212 C factor cell-cell signaling protein; Provisional; Region: PRK09009 398577012213 NAD(P) binding site [chemical binding]; other site 398577012214 active site 398577012215 Uncharacterized conserved protein [Function unknown]; Region: COG1359 398577012216 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398577012217 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 398577012218 putative active site [active] 398577012219 metal binding site [ion binding]; metal-binding site 398577012220 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 398577012221 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398577012222 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 398577012223 substrate binding pocket [chemical binding]; other site 398577012224 membrane-bound complex binding site; other site 398577012225 hinge residues; other site 398577012226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 398577012227 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398577012228 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 398577012229 peptide binding site [polypeptide binding]; other site 398577012230 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398577012231 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 398577012232 active site 398577012233 iron coordination sites [ion binding]; other site 398577012234 substrate binding pocket [chemical binding]; other site 398577012235 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 398577012236 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 398577012237 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 398577012238 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 398577012239 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398577012240 Type IV pili component [Cell motility and secretion]; Region: COG5461 398577012241 AAA domain; Region: AAA_31; pfam13614 398577012242 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 398577012243 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 398577012244 ATP binding site [chemical binding]; other site 398577012245 Walker A motif; other site 398577012246 hexamer interface [polypeptide binding]; other site 398577012247 Walker B motif; other site 398577012248 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 398577012249 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577012250 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 398577012251 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577012252 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 398577012253 binding surface 398577012254 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398577012255 TPR motif; other site 398577012256 TadE-like protein; Region: TadE; pfam07811 398577012257 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 398577012258 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 398577012259 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 398577012260 Ligand binding site; other site 398577012261 Putative Catalytic site; other site 398577012262 DXD motif; other site 398577012263 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 398577012264 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 398577012265 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398577012266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577012267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012268 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 398577012269 dimerization interface [polypeptide binding]; other site 398577012270 substrate binding pocket [chemical binding]; other site 398577012271 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577012272 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577012273 putative substrate translocation pore; other site 398577012274 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577012275 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577012276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012277 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 398577012278 putative substrate binding pocket [chemical binding]; other site 398577012279 putative dimerization interface [polypeptide binding]; other site 398577012280 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 398577012281 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 398577012282 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 398577012283 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398577012284 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 398577012285 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398577012286 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398577012287 tetrameric interface [polypeptide binding]; other site 398577012288 NAD binding site [chemical binding]; other site 398577012289 catalytic residues [active] 398577012290 shikimate transporter; Provisional; Region: PRK09952 398577012291 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577012292 putative substrate translocation pore; other site 398577012293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577012294 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012295 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 398577012296 dimerization interface [polypeptide binding]; other site 398577012297 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398577012298 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 398577012299 active site 398577012300 motif I; other site 398577012301 motif II; other site 398577012302 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398577012303 GAF domain; Region: GAF; pfam01590 398577012304 PAS domain S-box; Region: sensory_box; TIGR00229 398577012305 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 398577012306 putative active site [active] 398577012307 heme pocket [chemical binding]; other site 398577012308 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577012309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577012310 metal binding site [ion binding]; metal-binding site 398577012311 active site 398577012312 I-site; other site 398577012313 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 398577012314 Response regulator receiver domain; Region: Response_reg; pfam00072 398577012315 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 398577012316 active site 398577012317 phosphorylation site [posttranslational modification] 398577012318 intermolecular recognition site; other site 398577012319 dimerization interface [polypeptide binding]; other site 398577012320 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577012321 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577012322 metal binding site [ion binding]; metal-binding site 398577012323 active site 398577012324 I-site; other site 398577012325 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 398577012326 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 398577012327 active site 398577012328 phosphorylation site [posttranslational modification] 398577012329 intermolecular recognition site; other site 398577012330 CheB methylesterase; Region: CheB_methylest; pfam01339 398577012331 Protein of unknown function (DUF969); Region: DUF969; pfam06149 398577012332 Predicted membrane protein [Function unknown]; Region: COG3817 398577012333 Protein of unknown function (DUF979); Region: DUF979; pfam06166 398577012334 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 398577012335 L-asparaginase II; Region: Asparaginase_II; pfam06089 398577012336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012337 transcriptional activator TtdR; Provisional; Region: PRK09801 398577012338 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 398577012339 putative effector binding pocket; other site 398577012340 dimerization interface [polypeptide binding]; other site 398577012341 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 398577012342 Aspartase; Region: Aspartase; cd01357 398577012343 active sites [active] 398577012344 tetramer interface [polypeptide binding]; other site 398577012345 L-asparagine permease; Provisional; Region: PRK15049 398577012346 putative hydrolase; Provisional; Region: PRK11460 398577012347 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 398577012348 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 398577012349 oligomeric interface; other site 398577012350 putative active site [active] 398577012351 homodimer interface [polypeptide binding]; other site 398577012352 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398577012353 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 398577012354 dimerization interface [polypeptide binding]; other site 398577012355 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 398577012356 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 398577012357 putative binding surface; other site 398577012358 active site 398577012359 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 398577012360 ATP binding site [chemical binding]; other site 398577012361 Mg2+ binding site [ion binding]; other site 398577012362 G-X-G motif; other site 398577012363 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577012364 putative CheW interface [polypeptide binding]; other site 398577012365 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 398577012366 Response regulator receiver domain; Region: Response_reg; pfam00072 398577012367 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 398577012368 active site 398577012369 phosphorylation site [posttranslational modification] 398577012370 intermolecular recognition site; other site 398577012371 dimerization interface [polypeptide binding]; other site 398577012372 enoyl-CoA hydratase; Validated; Region: PRK08139 398577012373 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 398577012374 substrate binding site [chemical binding]; other site 398577012375 oxyanion hole (OAH) forming residues; other site 398577012376 trimer interface [polypeptide binding]; other site 398577012377 alanine racemase; Reviewed; Region: PRK13340 398577012378 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 398577012379 active site 398577012380 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398577012381 substrate binding site [chemical binding]; other site 398577012382 catalytic residues [active] 398577012383 dimer interface [polypeptide binding]; other site 398577012384 MAPEG family; Region: MAPEG; cl09190 398577012385 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 398577012386 hypothetical protein; Provisional; Region: PRK07483 398577012387 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 398577012388 inhibitor-cofactor binding pocket; inhibition site 398577012389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577012390 catalytic residue [active] 398577012391 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 398577012392 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 398577012393 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 398577012394 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 398577012395 catalytic residue [active] 398577012396 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 398577012397 catalytic residues [active] 398577012398 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577012399 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577012400 peroxiredoxin; Region: AhpC; TIGR03137 398577012401 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 398577012402 dimer interface [polypeptide binding]; other site 398577012403 decamer (pentamer of dimers) interface [polypeptide binding]; other site 398577012404 catalytic triad [active] 398577012405 peroxidatic and resolving cysteines [active] 398577012406 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 398577012407 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577012408 substrate binding pocket [chemical binding]; other site 398577012409 membrane-bound complex binding site; other site 398577012410 hinge residues; other site 398577012411 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577012412 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398577012413 aspartate racemase; Region: asp_race; TIGR00035 398577012414 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398577012415 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577012416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012417 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 398577012418 dimerization interface [polypeptide binding]; other site 398577012419 substrate binding pocket [chemical binding]; other site 398577012420 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577012421 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 398577012422 dimerization interface [polypeptide binding]; other site 398577012423 ligand binding site [chemical binding]; other site 398577012424 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 398577012425 allantoate amidohydrolase; Reviewed; Region: PRK12891 398577012426 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398577012427 active site 398577012428 metal binding site [ion binding]; metal-binding site 398577012429 dimer interface [polypeptide binding]; other site 398577012430 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577012431 Cytochrome c; Region: Cytochrom_C; pfam00034 398577012432 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 398577012433 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 398577012434 glutaminase active site [active] 398577012435 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 398577012436 dimer interface [polypeptide binding]; other site 398577012437 active site 398577012438 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 398577012439 dimer interface [polypeptide binding]; other site 398577012440 active site 398577012441 N-glycosyltransferase; Provisional; Region: PRK11204 398577012442 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 398577012443 DXD motif; other site 398577012444 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 398577012445 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 398577012446 putative active site [active] 398577012447 putative metal binding site [ion binding]; other site 398577012448 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 398577012449 cell density-dependent motility repressor; Provisional; Region: PRK10082 398577012450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012451 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 398577012452 dimerization interface [polypeptide binding]; other site 398577012453 Uncharacterized conserved protein [Function unknown]; Region: COG2308 398577012454 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 398577012455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 398577012456 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398577012457 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 398577012458 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398577012459 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398577012460 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 398577012461 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 398577012462 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398577012463 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398577012464 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 398577012465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 398577012466 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 398577012467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 398577012468 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 398577012469 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 398577012470 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 398577012471 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 398577012472 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 398577012473 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398577012474 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 398577012475 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577012476 catalytic residue [active] 398577012477 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398577012478 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 398577012479 PYR/PP interface [polypeptide binding]; other site 398577012480 dimer interface [polypeptide binding]; other site 398577012481 TPP binding site [chemical binding]; other site 398577012482 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 398577012483 TPP-binding site; other site 398577012484 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 398577012485 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 398577012486 tetramer interface [polypeptide binding]; other site 398577012487 active site 398577012488 Mg2+/Mn2+ binding site [ion binding]; other site 398577012489 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 398577012490 active site 398577012491 metal-binding site 398577012492 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 398577012493 active site 398577012494 metal-binding site 398577012495 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 398577012496 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 398577012497 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 398577012498 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 398577012499 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 398577012500 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 398577012501 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 398577012502 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 398577012503 DNA binding residues [nucleotide binding] 398577012504 putative dimer interface [polypeptide binding]; other site 398577012505 putative metal binding residues [ion binding]; other site 398577012506 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 398577012507 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 398577012508 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398577012509 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577012510 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 398577012511 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398577012512 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 398577012513 DNA binding residues [nucleotide binding] 398577012514 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 398577012515 Bacterial SH3 domain; Region: SH3_3; pfam08239 398577012516 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 398577012517 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 398577012518 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 398577012519 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 398577012520 dimer interface [polypeptide binding]; other site 398577012521 NADP binding site [chemical binding]; other site 398577012522 catalytic residues [active] 398577012523 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 398577012524 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 398577012525 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398577012526 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577012527 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398577012528 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577012529 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 398577012530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 398577012531 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 398577012532 dimerization interface [polypeptide binding]; other site 398577012533 putative DNA binding site [nucleotide binding]; other site 398577012534 putative Zn2+ binding site [ion binding]; other site 398577012535 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 398577012536 Predicted transporter component [General function prediction only]; Region: COG2391 398577012537 Predicted transporter component [General function prediction only]; Region: COG2391 398577012538 Sulphur transport; Region: Sulf_transp; pfam04143 398577012539 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 398577012540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577012541 DNA-binding site [nucleotide binding]; DNA binding site 398577012542 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 398577012543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577012544 homodimer interface [polypeptide binding]; other site 398577012545 catalytic residue [active] 398577012546 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 398577012547 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398577012548 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398577012549 active site 398577012550 metal binding site [ion binding]; metal-binding site 398577012551 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 398577012552 S-adenosylmethionine binding site [chemical binding]; other site 398577012553 BCCT family transporter; Region: BCCT; pfam02028 398577012554 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577012555 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 398577012556 trimer interface [polypeptide binding]; other site 398577012557 eyelet of channel; other site 398577012558 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 398577012559 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 398577012560 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 398577012561 putative active site [active] 398577012562 putative catalytic site [active] 398577012563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577012564 D-galactonate transporter; Region: 2A0114; TIGR00893 398577012565 putative substrate translocation pore; other site 398577012566 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398577012567 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398577012568 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 398577012569 putative active site [active] 398577012570 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 398577012571 catalytic nucleophile [active] 398577012572 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 398577012573 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577012574 Walker A/P-loop; other site 398577012575 ATP binding site [chemical binding]; other site 398577012576 Q-loop/lid; other site 398577012577 ABC transporter signature motif; other site 398577012578 Walker B; other site 398577012579 D-loop; other site 398577012580 H-loop/switch region; other site 398577012581 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398577012582 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577012583 Walker A/P-loop; other site 398577012584 ATP binding site [chemical binding]; other site 398577012585 Q-loop/lid; other site 398577012586 ABC transporter signature motif; other site 398577012587 Walker B; other site 398577012588 D-loop; other site 398577012589 H-loop/switch region; other site 398577012590 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 398577012591 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 398577012592 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 398577012593 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 398577012594 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 398577012595 dimer interface [polypeptide binding]; other site 398577012596 conserved gate region; other site 398577012597 putative PBP binding loops; other site 398577012598 ABC-ATPase subunit interface; other site 398577012599 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 398577012600 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398577012601 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 398577012602 dimer interface [polypeptide binding]; other site 398577012603 conserved gate region; other site 398577012604 putative PBP binding loops; other site 398577012605 ABC-ATPase subunit interface; other site 398577012606 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 398577012607 homodimer interface [polypeptide binding]; other site 398577012608 homotetramer interface [polypeptide binding]; other site 398577012609 active site pocket [active] 398577012610 cleavage site 398577012611 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 398577012612 SxDxEG motif; other site 398577012613 active site 398577012614 metal binding site [ion binding]; metal-binding site 398577012615 homopentamer interface [polypeptide binding]; other site 398577012616 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577012617 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577012618 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577012619 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 398577012620 heterodimer interface [polypeptide binding]; other site 398577012621 active site 398577012622 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 398577012623 heterodimer interface [polypeptide binding]; other site 398577012624 multimer interface [polypeptide binding]; other site 398577012625 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 398577012626 active site 398577012627 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 398577012628 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577012629 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 398577012630 non-specific DNA binding site [nucleotide binding]; other site 398577012631 salt bridge; other site 398577012632 sequence-specific DNA binding site [nucleotide binding]; other site 398577012633 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398577012634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012635 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 398577012636 dimerization interface [polypeptide binding]; other site 398577012637 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 398577012638 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 398577012639 putative transporter; Provisional; Region: PRK11021 398577012640 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 398577012641 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 398577012642 ATP binding site [chemical binding]; other site 398577012643 putative Mg++ binding site [ion binding]; other site 398577012644 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 398577012645 nucleotide binding region [chemical binding]; other site 398577012646 ATP-binding site [chemical binding]; other site 398577012647 DEAD/H associated; Region: DEAD_assoc; pfam08494 398577012648 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 398577012649 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398577012650 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398577012651 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 398577012652 H-NS histone family; Region: Histone_HNS; pfam00816 398577012653 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577012654 Uncharacterized conserved protein [Function unknown]; Region: COG1739 398577012655 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 398577012656 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 398577012657 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 398577012658 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 398577012659 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 398577012660 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 398577012661 putative acyl-acceptor binding pocket; other site 398577012662 Phosphopantetheine attachment site; Region: PP-binding; cl09936 398577012663 acyl carrier protein; Provisional; Region: PRK05350 398577012664 Predicted membrane protein [Function unknown]; Region: COG4648 398577012665 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 398577012666 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398577012667 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398577012668 acyl-activating enzyme (AAE) consensus motif; other site 398577012669 acyl-activating enzyme (AAE) consensus motif; other site 398577012670 AMP binding site [chemical binding]; other site 398577012671 active site 398577012672 CoA binding site [chemical binding]; other site 398577012673 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 398577012674 active site 2 [active] 398577012675 dimer interface [polypeptide binding]; other site 398577012676 active site 1 [active] 398577012677 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398577012678 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 398577012679 Ligand binding site; other site 398577012680 Putative Catalytic site; other site 398577012681 DXD motif; other site 398577012682 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 398577012683 putative acyl-acceptor binding pocket; other site 398577012684 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398577012685 active sites [active] 398577012686 tetramer interface [polypeptide binding]; other site 398577012687 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 398577012688 active site 398577012689 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 398577012690 Predicted exporter [General function prediction only]; Region: COG4258 398577012691 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 398577012692 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 398577012693 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 398577012694 dimer interface [polypeptide binding]; other site 398577012695 active site 398577012696 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398577012697 active site 2 [active] 398577012698 active site 1 [active] 398577012699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577012700 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 398577012701 NAD(P) binding site [chemical binding]; other site 398577012702 active site 398577012703 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 398577012704 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 398577012705 dimer interface [polypeptide binding]; other site 398577012706 active site 398577012707 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 398577012708 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 398577012709 dimer interface [polypeptide binding]; other site 398577012710 active site 398577012711 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 398577012712 Methyltransferase domain; Region: Methyltransf_23; pfam13489 398577012713 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 398577012714 S-adenosylmethionine binding site [chemical binding]; other site 398577012715 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 398577012716 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 398577012717 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 398577012718 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 398577012719 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 398577012720 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 398577012721 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 398577012722 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 398577012723 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398577012724 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 398577012725 SLBB domain; Region: SLBB; pfam10531 398577012726 Chain length determinant protein; Region: Wzz; pfam02706 398577012727 tyrosine kinase; Provisional; Region: PRK11519 398577012728 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 398577012729 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 398577012730 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398577012731 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 398577012732 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 398577012733 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 398577012734 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 398577012735 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577012736 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 398577012737 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 398577012738 active site 398577012739 Right handed beta helix region; Region: Beta_helix; pfam13229 398577012740 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 398577012741 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 398577012742 Substrate binding site; other site 398577012743 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 398577012744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398577012745 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398577012746 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 398577012747 Walker A motif; other site 398577012748 ATP binding site [chemical binding]; other site 398577012749 Walker B motif; other site 398577012750 arginine finger; other site 398577012751 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577012752 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 398577012753 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 398577012754 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 398577012755 dimer interface [polypeptide binding]; other site 398577012756 motif 1; other site 398577012757 active site 398577012758 motif 2; other site 398577012759 motif 3; other site 398577012760 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577012761 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398577012762 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577012763 active site 398577012764 acyl carrier protein; Provisional; Region: PRK07081 398577012765 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398577012766 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 398577012767 ligand binding site [chemical binding]; other site 398577012768 flexible hinge region; other site 398577012769 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 398577012770 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398577012771 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 398577012772 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 398577012773 non-specific DNA interactions [nucleotide binding]; other site 398577012774 DNA binding site [nucleotide binding] 398577012775 sequence specific DNA binding site [nucleotide binding]; other site 398577012776 putative cAMP binding site [chemical binding]; other site 398577012777 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 398577012778 Bacterial sugar transferase; Region: Bac_transf; pfam02397 398577012779 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 398577012780 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 398577012781 hypothetical protein; Provisional; Region: PRK08609 398577012782 active site 398577012783 primer binding site [nucleotide binding]; other site 398577012784 NTP binding site [chemical binding]; other site 398577012785 metal binding triad [ion binding]; metal-binding site 398577012786 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 398577012787 active site 398577012788 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 398577012789 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 398577012790 hexamer interface [polypeptide binding]; other site 398577012791 ligand binding site [chemical binding]; other site 398577012792 putative active site [active] 398577012793 NAD(P) binding site [chemical binding]; other site 398577012794 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 398577012795 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398577012796 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577012797 Cytochrome c; Region: Cytochrom_C; pfam00034 398577012798 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577012799 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577012800 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398577012801 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398577012802 putative cation:proton antiport protein; Provisional; Region: PRK10669 398577012803 TrkA-N domain; Region: TrkA_N; pfam02254 398577012804 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 398577012805 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 398577012806 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 398577012807 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 398577012808 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 398577012809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577012810 NAD(P) binding site [chemical binding]; other site 398577012811 active site 398577012812 MarR family; Region: MarR_2; cl17246 398577012813 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577012814 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398577012815 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 398577012816 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577012817 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 398577012818 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 398577012819 NAD binding site [chemical binding]; other site 398577012820 catalytic residues [active] 398577012821 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 398577012822 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 398577012823 putative active site [active] 398577012824 putative metal binding site [ion binding]; other site 398577012825 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 398577012826 putative substrate binding pocket [chemical binding]; other site 398577012827 trimer interface [polypeptide binding]; other site 398577012828 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398577012829 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 398577012830 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577012831 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577012832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577012833 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398577012834 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 398577012835 NAD(P) binding site [chemical binding]; other site 398577012836 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577012837 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 398577012838 eyelet of channel; other site 398577012839 trimer interface [polypeptide binding]; other site 398577012840 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 398577012841 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 398577012842 Walker A/P-loop; other site 398577012843 ATP binding site [chemical binding]; other site 398577012844 Q-loop/lid; other site 398577012845 ABC transporter signature motif; other site 398577012846 Walker B; other site 398577012847 D-loop; other site 398577012848 H-loop/switch region; other site 398577012849 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 398577012850 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 398577012851 dimer interface [polypeptide binding]; other site 398577012852 conserved gate region; other site 398577012853 ABC-ATPase subunit interface; other site 398577012854 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 398577012855 dimer interface [polypeptide binding]; other site 398577012856 conserved gate region; other site 398577012857 putative PBP binding loops; other site 398577012858 ABC-ATPase subunit interface; other site 398577012859 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398577012860 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398577012861 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 398577012862 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 398577012863 active site 398577012864 phosphorylation site [posttranslational modification] 398577012865 intermolecular recognition site; other site 398577012866 dimerization interface [polypeptide binding]; other site 398577012867 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 398577012868 DNA binding site [nucleotide binding] 398577012869 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 398577012870 HAMP domain; Region: HAMP; pfam00672 398577012871 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 398577012872 dimer interface [polypeptide binding]; other site 398577012873 phosphorylation site [posttranslational modification] 398577012874 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 398577012875 ATP binding site [chemical binding]; other site 398577012876 Mg2+ binding site [ion binding]; other site 398577012877 G-X-G motif; other site 398577012878 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398577012879 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 398577012880 NADP binding site [chemical binding]; other site 398577012881 dimer interface [polypeptide binding]; other site 398577012882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577012883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577012884 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398577012885 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 398577012886 membrane-bound complex binding site; other site 398577012887 Probable transposase; Region: OrfB_IS605; pfam01385 398577012888 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577012889 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577012890 Cytochrome c; Region: Cytochrom_C; pfam00034 398577012891 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398577012892 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398577012893 Walker A/P-loop; other site 398577012894 ATP binding site [chemical binding]; other site 398577012895 Q-loop/lid; other site 398577012896 ABC transporter signature motif; other site 398577012897 Walker B; other site 398577012898 D-loop; other site 398577012899 H-loop/switch region; other site 398577012900 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398577012901 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 398577012902 dimer interface [polypeptide binding]; other site 398577012903 conserved gate region; other site 398577012904 putative PBP binding loops; other site 398577012905 ABC-ATPase subunit interface; other site 398577012906 NMT1-like family; Region: NMT1_2; pfam13379 398577012907 NMT1/THI5 like; Region: NMT1; pfam09084 398577012908 hypothetical protein; Provisional; Region: PRK06208 398577012909 active site 398577012910 intersubunit interface [polypeptide binding]; other site 398577012911 Zn2+ binding site [ion binding]; other site 398577012912 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 398577012913 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 398577012914 dimer interface [polypeptide binding]; other site 398577012915 active site 398577012916 non-prolyl cis peptide bond; other site 398577012917 insertion regions; other site 398577012918 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577012919 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398577012920 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398577012921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577012922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012923 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 398577012924 dimerization interface [polypeptide binding]; other site 398577012925 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 398577012926 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 398577012927 active site residue [active] 398577012928 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 398577012929 active site residue [active] 398577012930 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 398577012931 active site residue [active] 398577012932 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 398577012933 active site residue [active] 398577012934 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 398577012935 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 398577012936 putative active site [active] 398577012937 catalytic site [active] 398577012938 putative metal binding site [ion binding]; other site 398577012939 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398577012940 active site lid residues [active] 398577012941 substrate binding pocket [chemical binding]; other site 398577012942 catalytic residues [active] 398577012943 substrate-Mg2+ binding site; other site 398577012944 aspartate-rich region 1; other site 398577012945 aspartate-rich region 2; other site 398577012946 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577012947 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 398577012948 trimer interface [polypeptide binding]; other site 398577012949 eyelet of channel; other site 398577012950 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577012951 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 398577012952 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 398577012953 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398577012954 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398577012955 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398577012956 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398577012957 Walker A/P-loop; other site 398577012958 ATP binding site [chemical binding]; other site 398577012959 Q-loop/lid; other site 398577012960 ABC transporter signature motif; other site 398577012961 Walker B; other site 398577012962 D-loop; other site 398577012963 H-loop/switch region; other site 398577012964 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577012965 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577012966 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577012967 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398577012968 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398577012969 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577012970 DNA-binding site [nucleotide binding]; DNA binding site 398577012971 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 398577012972 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 398577012973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577012974 homodimer interface [polypeptide binding]; other site 398577012975 catalytic residue [active] 398577012976 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 398577012977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577012978 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 398577012979 dimerization interface [polypeptide binding]; other site 398577012980 short chain dehydrogenase; Provisional; Region: PRK06500 398577012981 classical (c) SDRs; Region: SDR_c; cd05233 398577012982 NAD(P) binding site [chemical binding]; other site 398577012983 active site 398577012984 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 398577012985 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 398577012986 substrate binding [chemical binding]; other site 398577012987 active site 398577012988 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 398577012989 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 398577012990 active site 398577012991 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577012992 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577012993 DNA binding site [nucleotide binding] 398577012994 domain linker motif; other site 398577012995 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 398577012996 ligand binding site [chemical binding]; other site 398577012997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577012998 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577012999 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577013000 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577013001 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398577013002 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 398577013003 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577013004 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398577013005 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577013006 putative active site [active] 398577013007 catalytic site [active] 398577013008 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577013009 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 398577013010 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398577013011 putative active site [active] 398577013012 catalytic site [active] 398577013013 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398577013014 Sel1-like repeats; Region: SEL1; smart00671 398577013015 PAAR motif; Region: PAAR_motif; pfam05488 398577013016 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398577013017 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 398577013018 potential catalytic triad [active] 398577013019 conserved cys residue [active] 398577013020 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398577013021 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 398577013022 active site 398577013023 FMN binding site [chemical binding]; other site 398577013024 substrate binding site [chemical binding]; other site 398577013025 homotetramer interface [polypeptide binding]; other site 398577013026 catalytic residue [active] 398577013027 Domain of unknown function DUF20; Region: UPF0118; pfam01594 398577013028 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 398577013029 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 398577013030 short chain dehydrogenase; Provisional; Region: PRK06523 398577013031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577013032 NAD(P) binding site [chemical binding]; other site 398577013033 active site 398577013034 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577013035 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577013036 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577013037 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577013038 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577013039 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398577013040 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 398577013041 dimerization interface [polypeptide binding]; other site 398577013042 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 398577013043 dimer interface [polypeptide binding]; other site 398577013044 phosphorylation site [posttranslational modification] 398577013045 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 398577013046 ATP binding site [chemical binding]; other site 398577013047 Mg2+ binding site [ion binding]; other site 398577013048 G-X-G motif; other site 398577013049 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398577013050 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 398577013051 active site 398577013052 phosphorylation site [posttranslational modification] 398577013053 intermolecular recognition site; other site 398577013054 dimerization interface [polypeptide binding]; other site 398577013055 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 398577013056 DNA binding site [nucleotide binding] 398577013057 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577013058 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577013059 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577013060 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577013061 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398577013062 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 398577013063 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 398577013064 ligand binding site [chemical binding]; other site 398577013065 flexible hinge region; other site 398577013066 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 398577013067 putative switch regulator; other site 398577013068 non-specific DNA interactions [nucleotide binding]; other site 398577013069 DNA binding site [nucleotide binding] 398577013070 sequence specific DNA binding site [nucleotide binding]; other site 398577013071 putative cAMP binding site [chemical binding]; other site 398577013072 acyl-CoA synthetase; Validated; Region: PRK08162 398577013073 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 398577013074 acyl-activating enzyme (AAE) consensus motif; other site 398577013075 putative active site [active] 398577013076 AMP binding site [chemical binding]; other site 398577013077 putative CoA binding site [chemical binding]; other site 398577013078 Cache domain; Region: Cache_1; pfam02743 398577013079 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398577013080 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577013081 dimer interface [polypeptide binding]; other site 398577013082 putative CheW interface [polypeptide binding]; other site 398577013083 Predicted membrane protein [Function unknown]; Region: COG1238 398577013084 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577013085 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577013086 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 398577013087 putative DNA binding site [nucleotide binding]; other site 398577013088 putative Zn2+ binding site [ion binding]; other site 398577013089 AsnC family; Region: AsnC_trans_reg; pfam01037 398577013090 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577013091 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577013092 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398577013093 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398577013094 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013095 putative substrate translocation pore; other site 398577013096 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 398577013097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577013098 NAD(P) binding site [chemical binding]; other site 398577013099 active site 398577013100 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577013101 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398577013102 conserved cys residue [active] 398577013103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577013104 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 398577013105 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577013106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013107 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 398577013108 dimerization interface [polypeptide binding]; other site 398577013109 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 398577013110 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 398577013111 inhibitor-cofactor binding pocket; inhibition site 398577013112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577013113 catalytic residue [active] 398577013114 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398577013115 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398577013116 tetrameric interface [polypeptide binding]; other site 398577013117 NAD binding site [chemical binding]; other site 398577013118 catalytic residues [active] 398577013119 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398577013120 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 398577013121 Predicted permeases [General function prediction only]; Region: COG0679 398577013122 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577013123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013124 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 398577013125 putative dimerization interface [polypeptide binding]; other site 398577013126 SnoaL-like domain; Region: SnoaL_2; pfam12680 398577013127 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577013128 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 398577013129 DNA binding residues [nucleotide binding] 398577013130 dimerization interface [polypeptide binding]; other site 398577013131 amino acid transporter; Region: 2A0306; TIGR00909 398577013132 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 398577013133 homodimer interface [polypeptide binding]; other site 398577013134 homotetramer interface [polypeptide binding]; other site 398577013135 active site pocket [active] 398577013136 cleavage site 398577013137 Fusaric acid resistance protein family; Region: FUSC; pfam04632 398577013138 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 398577013139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577013140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013141 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 398577013142 putative effector binding pocket; other site 398577013143 dimerization interface [polypeptide binding]; other site 398577013144 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577013145 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577013146 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 398577013147 trimer interface [polypeptide binding]; other site 398577013148 eyelet of channel; other site 398577013149 Probable transposase; Region: OrfB_IS605; pfam01385 398577013150 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577013151 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577013152 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 398577013153 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577013154 cytosine deaminase; Provisional; Region: PRK09230 398577013155 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 398577013156 active site 398577013157 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 398577013158 putative ion selectivity filter; other site 398577013159 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 398577013160 putative pore gating glutamate residue; other site 398577013161 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 398577013162 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398577013163 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013164 putative substrate translocation pore; other site 398577013165 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 398577013166 short chain dehydrogenase; Provisional; Region: PRK12829 398577013167 classical (c) SDRs; Region: SDR_c; cd05233 398577013168 NAD(P) binding site [chemical binding]; other site 398577013169 active site 398577013170 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398577013171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 398577013172 FCD domain; Region: FCD; pfam07729 398577013173 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 398577013174 sequence-specific DNA binding site [nucleotide binding]; other site 398577013175 salt bridge; other site 398577013176 HipA N-terminal domain; Region: Couple_hipA; cl11853 398577013177 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398577013178 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398577013179 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 398577013180 Phosphoesterase family; Region: Phosphoesterase; pfam04185 398577013181 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 398577013182 EamA-like transporter family; Region: EamA; pfam00892 398577013183 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577013184 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 398577013185 putative DNA binding site [nucleotide binding]; other site 398577013186 putative Zn2+ binding site [ion binding]; other site 398577013187 AsnC family; Region: AsnC_trans_reg; pfam01037 398577013188 aromatic amino acid transporter; Provisional; Region: PRK10238 398577013189 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 398577013190 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 398577013191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577013192 homodimer interface [polypeptide binding]; other site 398577013193 catalytic residue [active] 398577013194 Protein of unknown function, DUF488; Region: DUF488; cl01246 398577013195 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398577013196 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 398577013197 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 398577013198 ligand binding site [chemical binding]; other site 398577013199 flexible hinge region; other site 398577013200 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 398577013201 putative switch regulator; other site 398577013202 non-specific DNA interactions [nucleotide binding]; other site 398577013203 DNA binding site [nucleotide binding] 398577013204 sequence specific DNA binding site [nucleotide binding]; other site 398577013205 putative cAMP binding site [chemical binding]; other site 398577013206 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 398577013207 Response regulator receiver domain; Region: Response_reg; pfam00072 398577013208 active site 398577013209 phosphorylation site [posttranslational modification] 398577013210 intermolecular recognition site; other site 398577013211 dimerization interface [polypeptide binding]; other site 398577013212 ornithine cyclodeaminase; Validated; Region: PRK07340 398577013213 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398577013214 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398577013215 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577013216 DNA-binding site [nucleotide binding]; DNA binding site 398577013217 FCD domain; Region: FCD; pfam07729 398577013218 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577013219 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 398577013220 dimerization interface [polypeptide binding]; other site 398577013221 ligand binding site [chemical binding]; other site 398577013222 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398577013223 Proline racemase; Region: Pro_racemase; pfam05544 398577013224 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 398577013225 Transglycosylase; Region: Transgly; pfam00912 398577013226 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398577013227 PilZ domain; Region: PilZ; pfam07238 398577013228 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577013229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 398577013230 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577013231 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 398577013232 active site 398577013233 phosphorylation site [posttranslational modification] 398577013234 intermolecular recognition site; other site 398577013235 dimerization interface [polypeptide binding]; other site 398577013236 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 398577013237 DNA binding residues [nucleotide binding] 398577013238 dimerization interface [polypeptide binding]; other site 398577013239 PAS domain S-box; Region: sensory_box; TIGR00229 398577013240 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 398577013241 putative active site [active] 398577013242 heme pocket [chemical binding]; other site 398577013243 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 398577013244 Histidine kinase; Region: HisKA_3; pfam07730 398577013245 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 398577013246 ATP binding site [chemical binding]; other site 398577013247 Mg2+ binding site [ion binding]; other site 398577013248 G-X-G motif; other site 398577013249 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 398577013250 Ligand Binding Site [chemical binding]; other site 398577013251 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 398577013252 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398577013253 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 398577013254 active site residue [active] 398577013255 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 398577013256 Ligand Binding Site [chemical binding]; other site 398577013257 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 398577013258 Ligand Binding Site [chemical binding]; other site 398577013259 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 398577013260 Cache domain; Region: Cache_1; pfam02743 398577013261 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 398577013262 dimerization interface [polypeptide binding]; other site 398577013263 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 398577013264 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577013265 dimer interface [polypeptide binding]; other site 398577013266 putative CheW interface [polypeptide binding]; other site 398577013267 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398577013268 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 398577013269 Walker A motif; other site 398577013270 ATP binding site [chemical binding]; other site 398577013271 Walker B motif; other site 398577013272 arginine finger; other site 398577013273 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577013274 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398577013275 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 398577013276 putative active site [active] 398577013277 heme pocket [chemical binding]; other site 398577013278 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 398577013279 dimer interface [polypeptide binding]; other site 398577013280 phosphorylation site [posttranslational modification] 398577013281 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 398577013282 ATP binding site [chemical binding]; other site 398577013283 G-X-G motif; other site 398577013284 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 398577013285 Response regulator receiver domain; Region: Response_reg; pfam00072 398577013286 active site 398577013287 phosphorylation site [posttranslational modification] 398577013288 intermolecular recognition site; other site 398577013289 dimerization interface [polypeptide binding]; other site 398577013290 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 398577013291 PRC-barrel domain; Region: PRC; pfam05239 398577013292 FOG: CBS domain [General function prediction only]; Region: COG0517 398577013293 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 398577013294 MltA-interacting protein MipA; Region: MipA; cl01504 398577013295 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 398577013296 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 398577013297 DEAD_2; Region: DEAD_2; pfam06733 398577013298 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 398577013299 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 398577013300 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398577013301 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577013302 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 398577013303 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 398577013304 putative active site [active] 398577013305 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 398577013306 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 398577013307 putative active site [active] 398577013308 shikimate transporter; Provisional; Region: PRK09952 398577013309 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013310 putative substrate translocation pore; other site 398577013311 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 398577013312 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 398577013313 dimer interface [polypeptide binding]; other site 398577013314 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 398577013315 active site 398577013316 Fe binding site [ion binding]; other site 398577013317 HipA N-terminal domain; Region: couple_hipA; TIGR03071 398577013318 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398577013319 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398577013320 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398577013321 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 398577013322 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577013323 salt bridge; other site 398577013324 non-specific DNA binding site [nucleotide binding]; other site 398577013325 sequence-specific DNA binding site [nucleotide binding]; other site 398577013326 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398577013327 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398577013328 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 398577013329 putative NAD(P) binding site [chemical binding]; other site 398577013330 putative substrate binding site [chemical binding]; other site 398577013331 catalytic Zn binding site [ion binding]; other site 398577013332 structural Zn binding site [ion binding]; other site 398577013333 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 398577013334 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 398577013335 ligand binding site [chemical binding]; other site 398577013336 flexible hinge region; other site 398577013337 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 398577013338 putative switch regulator; other site 398577013339 non-specific DNA interactions [nucleotide binding]; other site 398577013340 DNA binding site [nucleotide binding] 398577013341 sequence specific DNA binding site [nucleotide binding]; other site 398577013342 putative cAMP binding site [chemical binding]; other site 398577013343 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 398577013344 Ligand Binding Site [chemical binding]; other site 398577013345 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 398577013346 Ligand Binding Site [chemical binding]; other site 398577013347 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 398577013348 Ligand Binding Site [chemical binding]; other site 398577013349 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 398577013350 Ligand Binding Site [chemical binding]; other site 398577013351 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 398577013352 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 398577013353 Ligand Binding Site [chemical binding]; other site 398577013354 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 398577013355 Ligand Binding Site [chemical binding]; other site 398577013356 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 398577013357 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 398577013358 NAD(P) binding site [chemical binding]; other site 398577013359 homotetramer interface [polypeptide binding]; other site 398577013360 homodimer interface [polypeptide binding]; other site 398577013361 active site 398577013362 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 398577013363 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 398577013364 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 398577013365 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 398577013366 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 398577013367 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398577013368 catalytic Zn binding site [ion binding]; other site 398577013369 structural Zn binding site [ion binding]; other site 398577013370 NAD(P) binding site [chemical binding]; other site 398577013371 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 398577013372 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577013373 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577013374 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 398577013375 Prostaglandin dehydrogenases; Region: PGDH; cd05288 398577013376 NAD(P) binding site [chemical binding]; other site 398577013377 substrate binding site [chemical binding]; other site 398577013378 dimer interface [polypeptide binding]; other site 398577013379 Uncharacterized conserved protein [Function unknown]; Region: COG1359 398577013380 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398577013381 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 398577013382 catalytic loop [active] 398577013383 iron binding site [ion binding]; other site 398577013384 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577013385 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577013386 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398577013387 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398577013388 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577013389 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577013390 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577013391 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398577013392 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577013393 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577013394 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398577013395 tetramerization interface [polypeptide binding]; other site 398577013396 NAD(P) binding site [chemical binding]; other site 398577013397 catalytic residues [active] 398577013398 Helix-turn-helix domain; Region: HTH_28; pfam13518 398577013399 Winged helix-turn helix; Region: HTH_29; pfam13551 398577013400 Homeodomain-like domain; Region: HTH_32; pfam13565 398577013401 Integrase core domain; Region: rve; pfam00665 398577013402 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 398577013403 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 398577013404 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398577013405 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 398577013406 active site 398577013407 Zn binding site [ion binding]; other site 398577013408 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 398577013409 substrate binding site [chemical binding]; other site 398577013410 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577013411 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 398577013412 trimer interface [polypeptide binding]; other site 398577013413 eyelet of channel; other site 398577013414 Probable transposase; Region: OrfB_IS605; pfam01385 398577013415 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577013416 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577013417 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577013418 ligand binding site [chemical binding]; other site 398577013419 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577013420 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577013421 Cytochrome c; Region: Cytochrom_C; pfam00034 398577013422 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398577013423 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577013424 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398577013425 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577013426 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398577013427 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577013428 PAS domain; Region: PAS; smart00091 398577013429 PAS fold; Region: PAS_7; pfam12860 398577013430 putative active site [active] 398577013431 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577013432 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577013433 metal binding site [ion binding]; metal-binding site 398577013434 active site 398577013435 I-site; other site 398577013436 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 398577013437 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 398577013438 putative active site [active] 398577013439 Zn binding site [ion binding]; other site 398577013440 recombination associated protein; Reviewed; Region: rdgC; PRK00321 398577013441 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398577013442 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577013443 Coenzyme A binding pocket [chemical binding]; other site 398577013444 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 398577013445 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577013446 substrate binding pocket [chemical binding]; other site 398577013447 membrane-bound complex binding site; other site 398577013448 hinge residues; other site 398577013449 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 398577013450 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 398577013451 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 398577013452 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 398577013453 active site 398577013454 non-prolyl cis peptide bond; other site 398577013455 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 398577013456 conserved gate region; other site 398577013457 dimer interface [polypeptide binding]; other site 398577013458 putative PBP binding loops; other site 398577013459 ABC-ATPase subunit interface; other site 398577013460 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398577013461 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577013462 Walker A/P-loop; other site 398577013463 ATP binding site [chemical binding]; other site 398577013464 Q-loop/lid; other site 398577013465 ABC transporter signature motif; other site 398577013466 Walker B; other site 398577013467 D-loop; other site 398577013468 H-loop/switch region; other site 398577013469 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577013470 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 398577013471 substrate binding pocket [chemical binding]; other site 398577013472 membrane-bound complex binding site; other site 398577013473 hinge residues; other site 398577013474 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 398577013475 active site 398577013476 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 398577013477 dimer interface [polypeptide binding]; other site 398577013478 non-prolyl cis peptide bond; other site 398577013479 insertion regions; other site 398577013480 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398577013481 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 398577013482 substrate binding pocket [chemical binding]; other site 398577013483 membrane-bound complex binding site; other site 398577013484 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 398577013485 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577013486 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577013487 MarR family; Region: MarR; pfam01047 398577013488 BNR repeat-like domain; Region: BNR_2; pfam13088 398577013489 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398577013490 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 398577013491 NAD binding site [chemical binding]; other site 398577013492 substrate binding site [chemical binding]; other site 398577013493 catalytic Zn binding site [ion binding]; other site 398577013494 tetramer interface [polypeptide binding]; other site 398577013495 structural Zn binding site [ion binding]; other site 398577013496 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 398577013497 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 398577013498 N-terminal plug; other site 398577013499 ligand-binding site [chemical binding]; other site 398577013500 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398577013501 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 398577013502 dimerization interface [polypeptide binding]; other site 398577013503 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398577013504 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577013505 dimer interface [polypeptide binding]; other site 398577013506 putative CheW interface [polypeptide binding]; other site 398577013507 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 398577013508 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 398577013509 active site 398577013510 homotetramer interface [polypeptide binding]; other site 398577013511 FtsH Extracellular; Region: FtsH_ext; pfam06480 398577013512 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 398577013513 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 398577013514 Walker A motif; other site 398577013515 ATP binding site [chemical binding]; other site 398577013516 Walker B motif; other site 398577013517 arginine finger; other site 398577013518 Peptidase family M41; Region: Peptidase_M41; pfam01434 398577013519 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 398577013520 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 398577013521 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 398577013522 active site 398577013523 substrate-binding site [chemical binding]; other site 398577013524 metal-binding site [ion binding] 398577013525 GTP binding site [chemical binding]; other site 398577013526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577013527 NAD(P) binding site [chemical binding]; other site 398577013528 active site 398577013529 EthD domain; Region: EthD; pfam07110 398577013530 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 398577013531 tetramer interface [polypeptide binding]; other site 398577013532 active site 398577013533 Mg2+/Mn2+ binding site [ion binding]; other site 398577013534 isocitrate lyase; Region: PLN02892 398577013535 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 398577013536 putative deacylase active site [active] 398577013537 YheO-like PAS domain; Region: PAS_6; pfam08348 398577013538 HTH domain; Region: HTH_22; pfam13309 398577013539 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 398577013540 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 398577013541 tetramer interface [polypeptide binding]; other site 398577013542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577013543 catalytic residue [active] 398577013544 hypothetical protein; Provisional; Region: PRK06194 398577013545 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 398577013546 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 398577013547 N-terminal plug; other site 398577013548 ligand-binding site [chemical binding]; other site 398577013549 LysE type translocator; Region: LysE; cl00565 398577013550 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577013551 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 398577013552 putative DNA binding site [nucleotide binding]; other site 398577013553 putative Zn2+ binding site [ion binding]; other site 398577013554 AsnC family; Region: AsnC_trans_reg; pfam01037 398577013555 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398577013556 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577013557 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 398577013558 dimer interface [polypeptide binding]; other site 398577013559 putative metal binding site [ion binding]; other site 398577013560 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 398577013561 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 398577013562 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 398577013563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013564 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577013565 putative substrate translocation pore; other site 398577013566 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 398577013567 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 398577013568 putative trimer interface [polypeptide binding]; other site 398577013569 putative CoA binding site [chemical binding]; other site 398577013570 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 398577013571 rRNA binding site [nucleotide binding]; other site 398577013572 predicted 30S ribosome binding site; other site 398577013573 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 398577013574 DNA-binding site [nucleotide binding]; DNA binding site 398577013575 RNA-binding motif; other site 398577013576 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 398577013577 oligomeric interface; other site 398577013578 putative active site [active] 398577013579 homodimer interface [polypeptide binding]; other site 398577013580 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 398577013581 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 398577013582 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 398577013583 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577013584 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013585 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 398577013586 dimerization interface [polypeptide binding]; other site 398577013587 putative transporter; Provisional; Region: PRK10504 398577013588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013589 putative substrate translocation pore; other site 398577013590 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013591 Predicted transcriptional regulator [Transcription]; Region: COG3905 398577013592 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 398577013593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 398577013594 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 398577013595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577013596 Coenzyme A binding pocket [chemical binding]; other site 398577013597 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398577013598 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 398577013599 dimer interface [polypeptide binding]; other site 398577013600 RNA polymerase sigma factor; Reviewed; Region: PRK05602 398577013601 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577013602 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 398577013603 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398577013604 active site 398577013605 metal binding site [ion binding]; metal-binding site 398577013606 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577013607 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 398577013608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013609 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 398577013610 dimerization interface [polypeptide binding]; other site 398577013611 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577013612 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 398577013613 dimerization interface [polypeptide binding]; other site 398577013614 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577013615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577013616 metal binding site [ion binding]; metal-binding site 398577013617 active site 398577013618 I-site; other site 398577013619 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398577013620 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398577013621 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 398577013622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577013623 DNA-binding site [nucleotide binding]; DNA binding site 398577013624 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 398577013625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577013626 homodimer interface [polypeptide binding]; other site 398577013627 catalytic residue [active] 398577013628 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 398577013629 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398577013630 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398577013631 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 398577013632 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 398577013633 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577013634 Predicted integral membrane protein [Function unknown]; Region: COG0392 398577013635 Uncharacterized conserved protein [Function unknown]; Region: COG2898 398577013636 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 398577013637 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 398577013638 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 398577013639 [4Fe-4S] binding site [ion binding]; other site 398577013640 molybdopterin cofactor binding site; other site 398577013641 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 398577013642 molybdopterin cofactor binding site; other site 398577013643 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 398577013644 Flavodoxin; Region: Flavodoxin_1; pfam00258 398577013645 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 398577013646 FAD binding pocket [chemical binding]; other site 398577013647 FAD binding motif [chemical binding]; other site 398577013648 catalytic residues [active] 398577013649 NAD binding pocket [chemical binding]; other site 398577013650 phosphate binding motif [ion binding]; other site 398577013651 beta-alpha-beta structure motif; other site 398577013652 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 398577013653 nitrite reductase subunit NirD; Provisional; Region: PRK14989 398577013654 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577013655 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577013656 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 398577013657 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 398577013658 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 398577013659 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013660 putative substrate translocation pore; other site 398577013661 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 398577013662 active site 398577013663 SAM binding site [chemical binding]; other site 398577013664 homodimer interface [polypeptide binding]; other site 398577013665 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 398577013666 active site 398577013667 phosphorylation site [posttranslational modification] 398577013668 intermolecular recognition site; other site 398577013669 dimerization interface [polypeptide binding]; other site 398577013670 ANTAR domain; Region: ANTAR; pfam03861 398577013671 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 398577013672 NMT1-like family; Region: NMT1_2; pfam13379 398577013673 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 398577013674 putative uracil binding site [chemical binding]; other site 398577013675 putative active site [active] 398577013676 Flagellin N-methylase; Region: FliB; pfam03692 398577013677 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577013678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577013679 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 398577013680 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577013681 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013682 putative substrate translocation pore; other site 398577013683 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 398577013684 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 398577013685 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 398577013686 protein binding site [polypeptide binding]; other site 398577013687 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 398577013688 protein binding site [polypeptide binding]; other site 398577013689 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398577013690 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013691 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 398577013692 putative dimerization interface [polypeptide binding]; other site 398577013693 putative substrate binding pocket [chemical binding]; other site 398577013694 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013695 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577013696 putative substrate translocation pore; other site 398577013697 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577013698 DNA-binding site [nucleotide binding]; DNA binding site 398577013699 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 398577013700 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 398577013701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577013702 homodimer interface [polypeptide binding]; other site 398577013703 catalytic residue [active] 398577013704 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398577013705 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398577013706 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398577013707 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398577013708 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398577013709 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 398577013710 putative NAD(P) binding site [chemical binding]; other site 398577013711 catalytic Zn binding site [ion binding]; other site 398577013712 CAAX protease self-immunity; Region: Abi; pfam02517 398577013713 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 398577013714 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577013715 active site 398577013716 catalytic tetrad [active] 398577013717 MarC family integral membrane protein; Region: MarC; cl00919 398577013718 enoyl-CoA hydratase; Provisional; Region: PRK05995 398577013719 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 398577013720 substrate binding site [chemical binding]; other site 398577013721 oxyanion hole (OAH) forming residues; other site 398577013722 trimer interface [polypeptide binding]; other site 398577013723 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 398577013724 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 398577013725 active site 398577013726 AMP binding site [chemical binding]; other site 398577013727 homodimer interface [polypeptide binding]; other site 398577013728 acyl-activating enzyme (AAE) consensus motif; other site 398577013729 CoA binding site [chemical binding]; other site 398577013730 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 398577013731 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398577013732 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577013733 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577013734 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 398577013735 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398577013736 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013737 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 398577013738 dimerization interface [polypeptide binding]; other site 398577013739 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577013740 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013741 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 398577013742 putative effector binding pocket; other site 398577013743 dimerization interface [polypeptide binding]; other site 398577013744 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 398577013745 HPP family; Region: HPP; pfam04982 398577013746 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 398577013747 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577013748 MarR family; Region: MarR_2; pfam12802 398577013749 MarR family; Region: MarR_2; cl17246 398577013750 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 398577013751 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 398577013752 Cl- selectivity filter; other site 398577013753 Cl- binding residues [ion binding]; other site 398577013754 pore gating glutamate residue; other site 398577013755 dimer interface [polypeptide binding]; other site 398577013756 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 398577013757 FOG: CBS domain [General function prediction only]; Region: COG0517 398577013758 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 398577013759 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 398577013760 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398577013761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013762 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 398577013763 dimerization interface [polypeptide binding]; other site 398577013764 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398577013765 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398577013766 metal binding site [ion binding]; metal-binding site 398577013767 putative dimer interface [polypeptide binding]; other site 398577013768 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 398577013769 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577013770 putative substrate translocation pore; other site 398577013771 Isochorismatase family; Region: Isochorismatase; pfam00857 398577013772 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 398577013773 catalytic triad [active] 398577013774 conserved cis-peptide bond; other site 398577013775 TIR domain; Region: TIR_2; pfam13676 398577013776 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 398577013777 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 398577013778 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577013779 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 398577013780 trimer interface [polypeptide binding]; other site 398577013781 eyelet of channel; other site 398577013782 Predicted membrane protein [Function unknown]; Region: COG2259 398577013783 Cytochrome c; Region: Cytochrom_C; pfam00034 398577013784 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577013785 Cytochrome c; Region: Cytochrom_C; pfam00034 398577013786 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577013787 Cytochrome c; Region: Cytochrom_C; pfam00034 398577013788 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398577013789 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577013790 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 398577013791 Bacterial Ig-like domain; Region: Big_5; pfam13205 398577013792 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 398577013793 MG2 domain; Region: A2M_N; pfam01835 398577013794 Alpha-2-macroglobulin family; Region: A2M; pfam00207 398577013795 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 398577013796 Transglycosylase; Region: Transgly; pfam00912 398577013797 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398577013798 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 398577013799 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 398577013800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013801 putative substrate translocation pore; other site 398577013802 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 398577013803 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398577013804 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577013805 DNA-binding site [nucleotide binding]; DNA binding site 398577013806 FCD domain; Region: FCD; pfam07729 398577013807 Ectoine synthase; Region: Ectoine_synth; pfam06339 398577013808 amidase; Provisional; Region: PRK07056 398577013809 Amidase; Region: Amidase; cl11426 398577013810 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 398577013811 dimer interface [polypeptide binding]; other site 398577013812 conserved gate region; other site 398577013813 putative PBP binding loops; other site 398577013814 ABC-ATPase subunit interface; other site 398577013815 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398577013816 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577013817 Walker A/P-loop; other site 398577013818 ATP binding site [chemical binding]; other site 398577013819 Q-loop/lid; other site 398577013820 ABC transporter signature motif; other site 398577013821 Walker B; other site 398577013822 D-loop; other site 398577013823 H-loop/switch region; other site 398577013824 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577013825 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 398577013826 substrate binding pocket [chemical binding]; other site 398577013827 membrane-bound complex binding site; other site 398577013828 hinge residues; other site 398577013829 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 398577013830 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 398577013831 substrate binding pocket [chemical binding]; other site 398577013832 membrane-bound complex binding site; other site 398577013833 hinge residues; other site 398577013834 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 398577013835 active site 398577013836 catalytic triad [active] 398577013837 magnesium-transporting ATPase; Provisional; Region: PRK15122 398577013838 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 398577013839 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398577013840 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 398577013841 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 398577013842 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398577013843 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 398577013844 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 398577013845 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 398577013846 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013847 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 398577013848 dimerization interface [polypeptide binding]; other site 398577013849 substrate binding pocket [chemical binding]; other site 398577013850 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 398577013851 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 398577013852 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577013853 MarR family; Region: MarR; pfam01047 398577013854 Isochorismatase family; Region: Isochorismatase; pfam00857 398577013855 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 398577013856 catalytic triad [active] 398577013857 conserved cis-peptide bond; other site 398577013858 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013859 putative substrate translocation pore; other site 398577013860 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013861 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398577013862 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398577013863 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 398577013864 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577013865 DNA-binding site [nucleotide binding]; DNA binding site 398577013866 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 398577013867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577013868 homodimer interface [polypeptide binding]; other site 398577013869 catalytic residue [active] 398577013870 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 398577013871 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 398577013872 putative molybdopterin cofactor binding site [chemical binding]; other site 398577013873 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 398577013874 putative molybdopterin cofactor binding site; other site 398577013875 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 398577013876 Fusaric acid resistance protein family; Region: FUSC; pfam04632 398577013877 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577013878 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013879 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 398577013880 putative effector binding pocket; other site 398577013881 dimerization interface [polypeptide binding]; other site 398577013882 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577013883 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013884 putative substrate translocation pore; other site 398577013885 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577013886 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 398577013887 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398577013888 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 398577013889 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398577013890 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 398577013891 Cupin; Region: Cupin_1; smart00835 398577013892 Cupin; Region: Cupin_1; smart00835 398577013893 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398577013894 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398577013895 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 398577013896 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 398577013897 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 398577013898 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 398577013899 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398577013900 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 398577013901 dimer interface [polypeptide binding]; other site 398577013902 conserved gate region; other site 398577013903 putative PBP binding loops; other site 398577013904 ABC-ATPase subunit interface; other site 398577013905 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398577013906 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 398577013907 dimer interface [polypeptide binding]; other site 398577013908 conserved gate region; other site 398577013909 putative PBP binding loops; other site 398577013910 ABC-ATPase subunit interface; other site 398577013911 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 398577013912 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577013913 Walker A/P-loop; other site 398577013914 ATP binding site [chemical binding]; other site 398577013915 Q-loop/lid; other site 398577013916 ABC transporter signature motif; other site 398577013917 Walker B; other site 398577013918 D-loop; other site 398577013919 H-loop/switch region; other site 398577013920 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 398577013921 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577013922 Walker A/P-loop; other site 398577013923 ATP binding site [chemical binding]; other site 398577013924 Q-loop/lid; other site 398577013925 ABC transporter signature motif; other site 398577013926 Walker B; other site 398577013927 D-loop; other site 398577013928 H-loop/switch region; other site 398577013929 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 398577013930 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577013931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013932 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 398577013933 substrate binding pocket [chemical binding]; other site 398577013934 dimerization interface [polypeptide binding]; other site 398577013935 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 398577013936 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577013937 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 398577013938 Peptidase family M23; Region: Peptidase_M23; pfam01551 398577013939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577013940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013941 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 398577013942 putative dimerization interface [polypeptide binding]; other site 398577013943 Predicted ester cyclase [General function prediction only]; Region: COG5485 398577013944 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 398577013945 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577013946 active site 398577013947 catalytic tetrad [active] 398577013948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577013949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013950 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 398577013951 putative effector binding pocket; other site 398577013952 putative dimerization interface [polypeptide binding]; other site 398577013953 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577013954 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 398577013955 trimer interface [polypeptide binding]; other site 398577013956 eyelet of channel; other site 398577013957 OpgC protein; Region: OpgC_C; pfam10129 398577013958 S-formylglutathione hydrolase; Region: PLN02442 398577013959 Putative esterase; Region: Esterase; pfam00756 398577013960 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577013961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577013962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577013963 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 398577013964 substrate binding pocket [chemical binding]; other site 398577013965 dimerization interface [polypeptide binding]; other site 398577013966 classical (c) SDRs; Region: SDR_c; cd05233 398577013967 NAD(P) binding site [chemical binding]; other site 398577013968 active site 398577013969 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577013970 MarR family; Region: MarR; pfam01047 398577013971 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398577013972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577013973 Coenzyme A binding pocket [chemical binding]; other site 398577013974 Cupin domain; Region: Cupin_2; cl17218 398577013975 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577013976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577013977 metal binding site [ion binding]; metal-binding site 398577013978 active site 398577013979 I-site; other site 398577013980 Ion channel; Region: Ion_trans_2; pfam07885 398577013981 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 398577013982 TrkA-N domain; Region: TrkA_N; pfam02254 398577013983 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577013984 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 398577013985 BetR domain; Region: BetR; pfam08667 398577013986 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 398577013987 active site 398577013988 phosphorylation site [posttranslational modification] 398577013989 intermolecular recognition site; other site 398577013990 dimerization interface [polypeptide binding]; other site 398577013991 Part of AAA domain; Region: AAA_19; pfam13245 398577013992 Family description; Region: UvrD_C_2; pfam13538 398577013993 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 398577013994 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 398577013995 dimer interface [polypeptide binding]; other site 398577013996 ligand binding site [chemical binding]; other site 398577013997 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 398577013998 dimerization interface [polypeptide binding]; other site 398577013999 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577014000 dimer interface [polypeptide binding]; other site 398577014001 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 398577014002 putative CheW interface [polypeptide binding]; other site 398577014003 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577014004 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014005 putative substrate translocation pore; other site 398577014006 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014007 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 398577014008 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 398577014009 NADP binding site [chemical binding]; other site 398577014010 dimer interface [polypeptide binding]; other site 398577014011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014013 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 398577014014 dimerization interface [polypeptide binding]; other site 398577014015 benzoate transport; Region: 2A0115; TIGR00895 398577014016 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014017 putative substrate translocation pore; other site 398577014018 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014019 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577014020 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 398577014021 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577014022 Coenzyme A binding pocket [chemical binding]; other site 398577014023 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 398577014024 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 398577014025 DNA binding residues [nucleotide binding] 398577014026 putative dimer interface [polypeptide binding]; other site 398577014027 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398577014028 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 398577014029 substrate binding pocket [chemical binding]; other site 398577014030 membrane-bound complex binding site; other site 398577014031 hinge residues; other site 398577014032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014033 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014034 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 398577014035 putative effector binding pocket; other site 398577014036 putative dimerization interface [polypeptide binding]; other site 398577014037 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398577014038 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577014039 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 398577014040 DNA-binding site [nucleotide binding]; DNA binding site 398577014041 RNA-binding motif; other site 398577014042 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 398577014043 oligomer interface [polypeptide binding]; other site 398577014044 putative active site [active] 398577014045 Mn binding site [ion binding]; other site 398577014046 YhhN-like protein; Region: YhhN; pfam07947 398577014047 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 398577014048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 398577014049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014050 short chain dehydrogenase; Provisional; Region: PRK07832 398577014051 NAD(P) binding site [chemical binding]; other site 398577014052 active site 398577014053 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 398577014054 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 398577014055 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577014056 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577014057 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 398577014058 Fic/DOC family; Region: Fic; pfam02661 398577014059 Urea transporter; Region: UT; cl01829 398577014060 aldolase II superfamily protein; Provisional; Region: PRK07044 398577014061 intersubunit interface [polypeptide binding]; other site 398577014062 active site 398577014063 Zn2+ binding site [ion binding]; other site 398577014064 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 398577014065 active site 1 [active] 398577014066 dimer interface [polypeptide binding]; other site 398577014067 hexamer interface [polypeptide binding]; other site 398577014068 active site 2 [active] 398577014069 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 398577014070 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 398577014071 arginine deiminase; Provisional; Region: PRK01388 398577014072 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398577014073 ornithine carbamoyltransferase; Validated; Region: PRK02102 398577014074 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398577014075 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 398577014076 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 398577014077 putative substrate binding site [chemical binding]; other site 398577014078 nucleotide binding site [chemical binding]; other site 398577014079 nucleotide binding site [chemical binding]; other site 398577014080 homodimer interface [polypeptide binding]; other site 398577014081 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 398577014082 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 398577014083 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 398577014084 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 398577014085 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 398577014086 amidase; Provisional; Region: PRK07486 398577014087 Amidase; Region: Amidase; pfam01425 398577014088 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 398577014089 Ligand Binding Site [chemical binding]; other site 398577014090 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 398577014091 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398577014092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 398577014093 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 398577014094 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 398577014095 trimer interface [polypeptide binding]; other site 398577014096 putative Zn binding site [ion binding]; other site 398577014097 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 398577014098 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 398577014099 catalytic loop [active] 398577014100 iron binding site [ion binding]; other site 398577014101 Methane monooxygenase (MMO) reductase of methanotrophs catalyzes the NADH-dependent hydroxylation of methane to methanol. This multicomponent enzyme mediates electron transfer via a hydroxylase (MMOH), a coupling protein, and a reductase which is...; Region: MMO_FAD_NAD_binding; cd06210 398577014102 FAD binding pocket [chemical binding]; other site 398577014103 FAD binding motif [chemical binding]; other site 398577014104 phosphate binding motif [ion binding]; other site 398577014105 beta-alpha-beta structure motif; other site 398577014106 NAD binding pocket [chemical binding]; other site 398577014107 hybrid cluster protein; Provisional; Region: PRK05290 398577014108 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 398577014109 ACS interaction site; other site 398577014110 CODH interaction site; other site 398577014111 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 398577014112 hybrid metal cluster; other site 398577014113 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 398577014114 benzoate transport; Region: 2A0115; TIGR00895 398577014115 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014116 putative substrate translocation pore; other site 398577014117 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014118 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 398577014119 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577014120 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 398577014121 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 398577014122 active site 398577014123 metal binding site [ion binding]; metal-binding site 398577014124 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 398577014125 putative active site [active] 398577014126 putative metal binding site [ion binding]; other site 398577014127 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577014128 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 398577014129 NAD(P) binding site [chemical binding]; other site 398577014130 catalytic residues [active] 398577014131 L-aspartate dehydrogenase; Provisional; Region: PRK13303 398577014132 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 398577014133 Domain of unknown function DUF108; Region: DUF108; pfam01958 398577014134 hypothetical protein; Provisional; Region: PRK07064 398577014135 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398577014136 PYR/PP interface [polypeptide binding]; other site 398577014137 dimer interface [polypeptide binding]; other site 398577014138 TPP binding site [chemical binding]; other site 398577014139 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398577014140 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 398577014141 TPP-binding site [chemical binding]; other site 398577014142 short chain dehydrogenase; Provisional; Region: PRK07062 398577014143 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 398577014144 putative NAD(P) binding site [chemical binding]; other site 398577014145 putative active site [active] 398577014146 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577014147 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577014148 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577014149 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577014150 Serine hydrolase; Region: Ser_hydrolase; cl17834 398577014151 Cupin domain; Region: Cupin_2; pfam07883 398577014152 short chain dehydrogenase; Provisional; Region: PRK12939 398577014153 classical (c) SDRs; Region: SDR_c; cd05233 398577014154 NAD(P) binding site [chemical binding]; other site 398577014155 active site 398577014156 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398577014157 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 398577014158 [2Fe-2S] cluster binding site [ion binding]; other site 398577014159 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 398577014160 hydrophobic ligand binding site; other site 398577014161 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 398577014162 [2Fe-2S] cluster binding site [ion binding]; other site 398577014163 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577014164 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 398577014165 trimer interface [polypeptide binding]; other site 398577014166 eyelet of channel; other site 398577014167 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577014168 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577014169 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577014170 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 398577014171 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 398577014172 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398577014173 putative active site [active] 398577014174 putative metal binding site [ion binding]; other site 398577014175 multidrug resistance protein MdtN; Provisional; Region: PRK10476 398577014176 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577014177 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577014178 Fusaric acid resistance protein family; Region: FUSC; pfam04632 398577014179 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 398577014180 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398577014181 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 398577014182 MgtC family; Region: MgtC; pfam02308 398577014183 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 398577014184 Autoinducer binding domain; Region: Autoind_bind; pfam03472 398577014185 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 398577014186 DNA binding residues [nucleotide binding] 398577014187 dimerization interface [polypeptide binding]; other site 398577014188 Autoinducer synthetase; Region: Autoind_synth; cl17404 398577014189 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 398577014190 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 398577014191 dimerization interface [polypeptide binding]; other site 398577014192 active site 398577014193 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 398577014194 FOG: CBS domain [General function prediction only]; Region: COG0517 398577014195 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577014196 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 398577014197 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 398577014198 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577014199 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 398577014200 trimer interface [polypeptide binding]; other site 398577014201 eyelet of channel; other site 398577014202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014203 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577014204 NAD(P) binding site [chemical binding]; other site 398577014205 active site 398577014206 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 398577014207 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 398577014208 DNA binding residues [nucleotide binding] 398577014209 dimer interface [polypeptide binding]; other site 398577014210 [2Fe-2S] cluster binding site [ion binding]; other site 398577014211 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398577014212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014213 NAD(P) binding site [chemical binding]; other site 398577014214 active site 398577014215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014217 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 398577014218 dimerization interface [polypeptide binding]; other site 398577014219 substrate binding pocket [chemical binding]; other site 398577014220 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 398577014221 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577014222 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398577014223 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577014224 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398577014225 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577014226 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398577014227 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398577014228 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398577014229 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398577014230 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398577014231 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 398577014232 putative active site [active] 398577014233 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 398577014234 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398577014235 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398577014236 Walker A/P-loop; other site 398577014237 ATP binding site [chemical binding]; other site 398577014238 Q-loop/lid; other site 398577014239 ABC transporter signature motif; other site 398577014240 Walker B; other site 398577014241 D-loop; other site 398577014242 H-loop/switch region; other site 398577014243 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 398577014244 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 398577014245 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 398577014246 dimer interface [polypeptide binding]; other site 398577014247 conserved gate region; other site 398577014248 putative PBP binding loops; other site 398577014249 ABC-ATPase subunit interface; other site 398577014250 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 398577014251 putative PBP binding loops; other site 398577014252 dimer interface [polypeptide binding]; other site 398577014253 ABC-ATPase subunit interface; other site 398577014254 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398577014255 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398577014256 active site 398577014257 metal binding site [ion binding]; metal-binding site 398577014258 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 398577014259 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 398577014260 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398577014261 nucleophile elbow; other site 398577014262 Patatin phospholipase; Region: DUF3734; pfam12536 398577014263 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398577014264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014265 NAD(P) binding site [chemical binding]; other site 398577014266 active site 398577014267 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577014268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014269 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 398577014270 dimerization interface [polypeptide binding]; other site 398577014271 substrate binding pocket [chemical binding]; other site 398577014272 Phage integrase protein; Region: DUF3701; pfam12482 398577014273 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 398577014274 DNA binding site [nucleotide binding] 398577014275 active site 398577014276 Int/Topo IB signature motif; other site 398577014277 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398577014278 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 398577014279 active site 398577014280 phosphorylation site [posttranslational modification] 398577014281 intermolecular recognition site; other site 398577014282 dimerization interface [polypeptide binding]; other site 398577014283 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 398577014284 DNA binding residues [nucleotide binding] 398577014285 dimerization interface [polypeptide binding]; other site 398577014286 Catalytic domain of Protein Kinases; Region: PKc; cd00180 398577014287 active site 398577014288 ATP binding site [chemical binding]; other site 398577014289 substrate binding site [chemical binding]; other site 398577014290 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398577014291 substrate binding site [chemical binding]; other site 398577014292 activation loop (A-loop); other site 398577014293 activation loop (A-loop); other site 398577014294 AAA ATPase domain; Region: AAA_16; pfam13191 398577014295 Predicted ATPase [General function prediction only]; Region: COG3899 398577014296 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398577014297 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398577014298 PAS domain S-box; Region: sensory_box; TIGR00229 398577014299 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 398577014300 putative active site [active] 398577014301 heme pocket [chemical binding]; other site 398577014302 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 398577014303 dimer interface [polypeptide binding]; other site 398577014304 phosphorylation site [posttranslational modification] 398577014305 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 398577014306 ATP binding site [chemical binding]; other site 398577014307 G-X-G motif; other site 398577014308 formate dehydrogenase; Provisional; Region: PRK07574 398577014309 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 398577014310 dimerization interface [polypeptide binding]; other site 398577014311 ligand binding site [chemical binding]; other site 398577014312 NAD binding site [chemical binding]; other site 398577014313 catalytic site [active] 398577014314 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398577014315 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 398577014316 active site 398577014317 phosphorylation site [posttranslational modification] 398577014318 intermolecular recognition site; other site 398577014319 dimerization interface [polypeptide binding]; other site 398577014320 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 398577014321 DNA binding residues [nucleotide binding] 398577014322 dimerization interface [polypeptide binding]; other site 398577014323 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 398577014324 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 398577014325 putative active site [active] 398577014326 heme pocket [chemical binding]; other site 398577014327 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 398577014328 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 398577014329 putative active site [active] 398577014330 heme pocket [chemical binding]; other site 398577014331 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 398577014332 dimer interface [polypeptide binding]; other site 398577014333 phosphorylation site [posttranslational modification] 398577014334 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 398577014335 ATP binding site [chemical binding]; other site 398577014336 Mg2+ binding site [ion binding]; other site 398577014337 G-X-G motif; other site 398577014338 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 398577014339 active site 398577014340 phosphorylation site [posttranslational modification] 398577014341 intermolecular recognition site; other site 398577014342 dimerization interface [polypeptide binding]; other site 398577014343 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577014344 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577014345 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577014346 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 398577014347 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 398577014348 putative molybdopterin cofactor binding site [chemical binding]; other site 398577014349 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 398577014350 putative molybdopterin cofactor binding site; other site 398577014351 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 398577014352 D-pathway; other site 398577014353 Low-spin heme binding site [chemical binding]; other site 398577014354 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 398577014355 Putative water exit pathway; other site 398577014356 Binuclear center (active site) [active] 398577014357 K-pathway; other site 398577014358 Putative proton exit pathway; other site 398577014359 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 398577014360 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577014361 Cytochrome c; Region: Cytochrom_C; pfam00034 398577014362 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 398577014363 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 398577014364 metal-binding site [ion binding] 398577014365 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398577014366 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 398577014367 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 398577014368 Moco binding site; other site 398577014369 metal coordination site [ion binding]; other site 398577014370 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cl12263 398577014371 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 398577014372 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577014373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014375 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 398577014376 putative dimerization interface [polypeptide binding]; other site 398577014377 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398577014378 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577014379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577014380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577014381 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014383 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 398577014384 putative effector binding pocket; other site 398577014385 dimerization interface [polypeptide binding]; other site 398577014386 short chain dehydrogenase; Provisional; Region: PRK12937 398577014387 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 398577014388 NADP binding site [chemical binding]; other site 398577014389 homodimer interface [polypeptide binding]; other site 398577014390 active site 398577014391 substrate binding site [chemical binding]; other site 398577014392 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577014393 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 398577014394 dimer interface [polypeptide binding]; other site 398577014395 phosphorylation site [posttranslational modification] 398577014396 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 398577014397 ATP binding site [chemical binding]; other site 398577014398 Mg2+ binding site [ion binding]; other site 398577014399 G-X-G motif; other site 398577014400 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577014401 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014402 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 398577014403 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 398577014404 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577014405 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398577014406 NADP binding site [chemical binding]; other site 398577014407 active site 398577014408 steroid binding site; other site 398577014409 short chain dehydrogenase; Provisional; Region: PRK12937 398577014410 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 398577014411 NADP binding site [chemical binding]; other site 398577014412 homodimer interface [polypeptide binding]; other site 398577014413 active site 398577014414 substrate binding site [chemical binding]; other site 398577014415 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398577014416 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398577014417 malate dehydrogenase; Provisional; Region: PRK05442 398577014418 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 398577014419 NAD(P) binding site [chemical binding]; other site 398577014420 dimer interface [polypeptide binding]; other site 398577014421 malate binding site [chemical binding]; other site 398577014422 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 398577014423 gating phenylalanine in ion channel; other site 398577014424 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 398577014425 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 398577014426 putative heme binding pocket [chemical binding]; other site 398577014427 Transposase; Region: HTH_Tnp_1; pfam01527 398577014428 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 398577014429 Integrase core domain; Region: rve; pfam00665 398577014430 Integrase core domain; Region: rve_3; pfam13683 398577014431 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577014432 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398577014433 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 398577014434 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398577014435 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 398577014436 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577014437 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398577014438 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577014439 NAD binding site [chemical binding]; other site 398577014440 catalytic residues [active] 398577014441 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 398577014442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014443 NAD(P) binding site [chemical binding]; other site 398577014444 active site 398577014445 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398577014446 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577014447 DNA-binding site [nucleotide binding]; DNA binding site 398577014448 FCD domain; Region: FCD; pfam07729 398577014449 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 398577014450 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398577014451 putative NAD(P) binding site [chemical binding]; other site 398577014452 substrate binding site [chemical binding]; other site 398577014453 choline dehydrogenase; Validated; Region: PRK02106 398577014454 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398577014455 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577014456 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398577014457 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577014458 Walker A/P-loop; other site 398577014459 ATP binding site [chemical binding]; other site 398577014460 Q-loop/lid; other site 398577014461 ABC transporter signature motif; other site 398577014462 Walker B; other site 398577014463 D-loop; other site 398577014464 H-loop/switch region; other site 398577014465 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577014466 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577014467 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 398577014468 TM-ABC transporter signature motif; other site 398577014469 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 398577014470 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 398577014471 ligand binding site [chemical binding]; other site 398577014472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014473 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398577014474 NAD(P) binding site [chemical binding]; other site 398577014475 active site 398577014476 succinic semialdehyde dehydrogenase; Region: PLN02278 398577014477 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398577014478 tetramerization interface [polypeptide binding]; other site 398577014479 NAD(P) binding site [chemical binding]; other site 398577014480 catalytic residues [active] 398577014481 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 398577014482 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 398577014483 PYR/PP interface [polypeptide binding]; other site 398577014484 dimer interface [polypeptide binding]; other site 398577014485 TPP binding site [chemical binding]; other site 398577014486 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398577014487 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 398577014488 TPP-binding site [chemical binding]; other site 398577014489 dimer interface [polypeptide binding]; other site 398577014490 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 398577014491 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398577014492 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398577014493 shikimate binding site; other site 398577014494 NAD(P) binding site [chemical binding]; other site 398577014495 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 398577014496 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 398577014497 dimer interface [polypeptide binding]; other site 398577014498 active site 398577014499 metal binding site [ion binding]; metal-binding site 398577014500 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014501 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577014502 putative substrate translocation pore; other site 398577014503 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577014504 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577014505 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577014506 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577014507 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398577014508 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577014509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014511 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 398577014512 dimerization interface [polypeptide binding]; other site 398577014513 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 398577014514 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 398577014515 dimerization interface [polypeptide binding]; other site 398577014516 putative DNA binding site [nucleotide binding]; other site 398577014517 putative Zn2+ binding site [ion binding]; other site 398577014518 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398577014519 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 398577014520 FMN binding site [chemical binding]; other site 398577014521 active site 398577014522 substrate binding site [chemical binding]; other site 398577014523 catalytic residue [active] 398577014524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577014525 Coenzyme A binding pocket [chemical binding]; other site 398577014526 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577014527 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 398577014528 active site 398577014529 catalytic site [active] 398577014530 putative metal binding site [ion binding]; other site 398577014531 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577014532 DNA binding site [nucleotide binding] 398577014533 domain linker motif; other site 398577014534 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 398577014535 putative dimerization interface [polypeptide binding]; other site 398577014536 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398577014537 putative ligand binding site [chemical binding]; other site 398577014538 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398577014539 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 398577014540 dimer interface [polypeptide binding]; other site 398577014541 conserved gate region; other site 398577014542 putative PBP binding loops; other site 398577014543 ABC-ATPase subunit interface; other site 398577014544 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 398577014545 dimer interface [polypeptide binding]; other site 398577014546 conserved gate region; other site 398577014547 putative PBP binding loops; other site 398577014548 ABC-ATPase subunit interface; other site 398577014549 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 398577014550 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398577014551 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577014552 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 398577014553 trimer interface [polypeptide binding]; other site 398577014554 eyelet of channel; other site 398577014555 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577014556 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577014557 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 398577014558 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 398577014559 hypothetical protein; Provisional; Region: PRK07481 398577014560 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 398577014561 inhibitor-cofactor binding pocket; inhibition site 398577014562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577014563 catalytic residue [active] 398577014564 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398577014565 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577014566 NAD(P) binding site [chemical binding]; other site 398577014567 catalytic residues [active] 398577014568 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577014569 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 398577014570 DNA binding residues [nucleotide binding] 398577014571 dimerization interface [polypeptide binding]; other site 398577014572 Predicted metalloprotease [General function prediction only]; Region: COG2321 398577014573 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 398577014574 classical (c) SDRs; Region: SDR_c; cd05233 398577014575 NAD(P) binding site [chemical binding]; other site 398577014576 active site 398577014577 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014579 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 398577014580 dimerization interface [polypeptide binding]; other site 398577014581 carbamoyl-phosphate synthase; Region: PLN02735 398577014582 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014583 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577014584 putative substrate translocation pore; other site 398577014585 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 398577014586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014587 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577014588 NAD(P) binding site [chemical binding]; other site 398577014589 active site 398577014590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014592 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 398577014593 putative effector binding pocket; other site 398577014594 dimerization interface [polypeptide binding]; other site 398577014595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014597 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 398577014598 dimerization interface [polypeptide binding]; other site 398577014599 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014600 putative substrate translocation pore; other site 398577014601 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 398577014602 homotrimer interaction site [polypeptide binding]; other site 398577014603 putative active site [active] 398577014604 short chain dehydrogenase; Provisional; Region: PRK12828 398577014605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014606 NAD(P) binding site [chemical binding]; other site 398577014607 active site 398577014608 Probable dihydrodipicolinate reductase; Region: PLN02775 398577014609 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 398577014610 classical (c) SDRs; Region: SDR_c; cd05233 398577014611 NAD(P) binding site [chemical binding]; other site 398577014612 active site 398577014613 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 398577014614 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577014615 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577014616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577014617 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398577014618 EamA-like transporter family; Region: EamA; pfam00892 398577014619 EamA-like transporter family; Region: EamA; pfam00892 398577014620 Predicted small secreted protein [Function unknown]; Region: COG5510 398577014621 aspartate carbamoyltransferase; Provisional; Region: PRK11891 398577014622 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 398577014623 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 398577014624 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 398577014625 oligomeric interface; other site 398577014626 putative active site [active] 398577014627 homodimer interface [polypeptide binding]; other site 398577014628 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 398577014629 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 398577014630 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 398577014631 N-terminal plug; other site 398577014632 ligand-binding site [chemical binding]; other site 398577014633 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398577014634 Sel1-like repeats; Region: SEL1; smart00671 398577014635 Sel1 repeat; Region: Sel1; cl02723 398577014636 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 398577014637 Inclusion body protein; Region: PixA; pfam12306 398577014638 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 398577014639 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 398577014640 putative active site [active] 398577014641 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 398577014642 metal-binding site 398577014643 short chain dehydrogenase; Provisional; Region: PRK07060 398577014644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014645 NAD(P) binding site [chemical binding]; other site 398577014646 active site 398577014647 L-fuculokinase; Region: fuculo_kin_coli; TIGR02628 398577014648 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 398577014649 N- and C-terminal domain interface [polypeptide binding]; other site 398577014650 putative active site [active] 398577014651 MgATP binding site [chemical binding]; other site 398577014652 catalytic site [active] 398577014653 metal binding site [ion binding]; metal-binding site 398577014654 putative xylulose binding site [chemical binding]; other site 398577014655 putative homodimer interface [polypeptide binding]; other site 398577014656 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 398577014657 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 398577014658 putative NAD(P) binding site [chemical binding]; other site 398577014659 catalytic Zn binding site [ion binding]; other site 398577014660 structural Zn binding site [ion binding]; other site 398577014661 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577014662 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 398577014663 TM-ABC transporter signature motif; other site 398577014664 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398577014665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577014666 Walker A/P-loop; other site 398577014667 ATP binding site [chemical binding]; other site 398577014668 Q-loop/lid; other site 398577014669 ABC transporter signature motif; other site 398577014670 Walker B; other site 398577014671 D-loop; other site 398577014672 H-loop/switch region; other site 398577014673 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577014674 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 398577014675 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398577014676 putative ligand binding site [chemical binding]; other site 398577014677 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577014678 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577014679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577014680 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 398577014681 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398577014682 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398577014683 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 398577014684 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 398577014685 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 398577014686 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 398577014687 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577014688 dimer interface [polypeptide binding]; other site 398577014689 putative CheW interface [polypeptide binding]; other site 398577014690 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577014691 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 398577014692 active site 398577014693 phosphorylation site [posttranslational modification] 398577014694 intermolecular recognition site; other site 398577014695 dimerization interface [polypeptide binding]; other site 398577014696 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 398577014697 DNA binding residues [nucleotide binding] 398577014698 dimerization interface [polypeptide binding]; other site 398577014699 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398577014700 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 398577014701 Walker A motif; other site 398577014702 ATP binding site [chemical binding]; other site 398577014703 Walker B motif; other site 398577014704 arginine finger; other site 398577014705 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 398577014706 DNA-binding interface [nucleotide binding]; DNA binding site 398577014707 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 398577014708 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577014709 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577014710 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398577014711 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 398577014712 catalytic loop [active] 398577014713 iron binding site [ion binding]; other site 398577014714 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577014715 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398577014716 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577014717 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398577014718 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577014719 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 398577014720 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577014721 DNA binding site [nucleotide binding] 398577014722 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 398577014723 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 398577014724 type III secretion system protein YscR; Provisional; Region: PRK12797 398577014725 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 398577014726 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577014727 catalytic residue [active] 398577014728 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 398577014729 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 398577014730 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 398577014731 active site 398577014732 dimer interface [polypeptide binding]; other site 398577014733 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 398577014734 Ligand Binding Site [chemical binding]; other site 398577014735 Molecular Tunnel; other site 398577014736 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 398577014737 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 398577014738 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 398577014739 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 398577014740 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 398577014741 Walker A motif/ATP binding site; other site 398577014742 Walker B motif; other site 398577014743 type III secretion system protein; Reviewed; Region: PRK06937 398577014744 Flagellar assembly protein FliH; Region: FliH; pfam02108 398577014745 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 398577014746 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 398577014747 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 398577014748 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 398577014749 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398577014750 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398577014751 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398577014752 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 398577014753 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 398577014754 FHIPEP family; Region: FHIPEP; pfam00771 398577014755 Autoinducer binding domain; Region: Autoind_bind; pfam03472 398577014756 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 398577014757 Autoinducer binding domain; Region: Autoind_bind; pfam03472 398577014758 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577014759 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 398577014760 DNA binding residues [nucleotide binding] 398577014761 dimerization interface [polypeptide binding]; other site 398577014762 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 398577014763 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398577014764 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 398577014765 Trehalase; Region: Trehalase; cl17346 398577014766 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 398577014767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577014768 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577014769 putative substrate translocation pore; other site 398577014770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 398577014771 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 398577014772 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 398577014773 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398577014774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577014775 Coenzyme A binding pocket [chemical binding]; other site 398577014776 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 398577014777 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 398577014778 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 398577014779 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 398577014780 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398577014781 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398577014782 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 398577014783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014784 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 398577014785 dimerization interface [polypeptide binding]; other site 398577014786 diaminopimelate decarboxylase; Provisional; Region: PRK11165 398577014787 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 398577014788 active site 398577014789 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 398577014790 substrate binding site [chemical binding]; other site 398577014791 catalytic residues [active] 398577014792 dimer interface [polypeptide binding]; other site 398577014793 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577014794 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 398577014795 substrate binding pocket [chemical binding]; other site 398577014796 membrane-bound complex binding site; other site 398577014797 hinge residues; other site 398577014798 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577014799 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 398577014800 dimer interface [polypeptide binding]; other site 398577014801 conserved gate region; other site 398577014802 putative PBP binding loops; other site 398577014803 ABC-ATPase subunit interface; other site 398577014804 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398577014805 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577014806 Walker A/P-loop; other site 398577014807 ATP binding site [chemical binding]; other site 398577014808 Q-loop/lid; other site 398577014809 ABC transporter signature motif; other site 398577014810 Walker B; other site 398577014811 D-loop; other site 398577014812 H-loop/switch region; other site 398577014813 cystathionine beta-lyase; Provisional; Region: PRK09028 398577014814 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 398577014815 homodimer interface [polypeptide binding]; other site 398577014816 substrate-cofactor binding pocket; other site 398577014817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577014818 catalytic residue [active] 398577014819 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 398577014820 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577014821 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 398577014822 DNA binding residues [nucleotide binding] 398577014823 dimerization interface [polypeptide binding]; other site 398577014824 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 398577014825 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 398577014826 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 398577014827 catalytic residues [active] 398577014828 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 398577014829 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 398577014830 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 398577014831 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577014832 DNA-binding site [nucleotide binding]; DNA binding site 398577014833 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 398577014834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577014835 homodimer interface [polypeptide binding]; other site 398577014836 catalytic residue [active] 398577014837 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 398577014838 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 398577014839 active site 398577014840 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 398577014841 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 398577014842 active site 398577014843 nucleotide binding site [chemical binding]; other site 398577014844 HIGH motif; other site 398577014845 KMSKS motif; other site 398577014846 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 398577014847 nudix motif; other site 398577014848 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 398577014849 hydrophobic ligand binding site; other site 398577014850 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 398577014851 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 398577014852 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 398577014853 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 398577014854 Short C-terminal domain; Region: SHOCT; pfam09851 398577014855 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 398577014856 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 398577014857 spermidine synthase; Provisional; Region: PRK03612 398577014858 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 398577014859 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577014860 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 398577014861 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 398577014862 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 398577014863 active site 398577014864 metal binding site [ion binding]; metal-binding site 398577014865 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 398577014866 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398577014867 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577014868 Coenzyme A binding pocket [chemical binding]; other site 398577014869 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 398577014870 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 398577014871 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577014872 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 398577014873 non-specific DNA binding site [nucleotide binding]; other site 398577014874 salt bridge; other site 398577014875 sequence-specific DNA binding site [nucleotide binding]; other site 398577014876 Cupin domain; Region: Cupin_2; pfam07883 398577014877 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577014878 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577014879 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014881 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 398577014882 putative effector binding pocket; other site 398577014883 dimerization interface [polypeptide binding]; other site 398577014884 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398577014885 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398577014886 tetrameric interface [polypeptide binding]; other site 398577014887 NAD binding site [chemical binding]; other site 398577014888 catalytic residues [active] 398577014889 VPS10 domain; Region: VPS10; smart00602 398577014890 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 398577014891 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 398577014892 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577014893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014894 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 398577014895 dimerization interface [polypeptide binding]; other site 398577014896 substrate binding pocket [chemical binding]; other site 398577014897 formyl-coenzyme A transferase; Provisional; Region: PRK05398 398577014898 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577014899 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577014900 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577014901 choline dehydrogenase; Validated; Region: PRK02106 398577014902 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577014903 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577014904 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398577014905 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398577014906 Na binding site [ion binding]; other site 398577014907 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577014908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577014909 NAD(P) binding site [chemical binding]; other site 398577014910 active site 398577014911 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577014912 Cupin domain; Region: Cupin_2; pfam07883 398577014913 Putative cyclase; Region: Cyclase; pfam04199 398577014914 hypothetical protein; Provisional; Region: PRK06847 398577014915 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577014916 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 398577014917 iron-sulfur cluster [ion binding]; other site 398577014918 [2Fe-2S] cluster binding site [ion binding]; other site 398577014919 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 398577014920 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577014921 putative active site [active] 398577014922 putative metal binding site [ion binding]; other site 398577014923 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577014924 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577014925 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 398577014926 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577014927 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577014928 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 398577014929 putative substrate binding pocket [chemical binding]; other site 398577014930 putative dimerization interface [polypeptide binding]; other site 398577014931 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 398577014932 NmrA-like family; Region: NmrA; pfam05368 398577014933 NAD(P) binding site [chemical binding]; other site 398577014934 active site lysine 398577014935 Predicted transcriptional regulators [Transcription]; Region: COG1733 398577014936 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 398577014937 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577014938 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 398577014939 AsnC family; Region: AsnC_trans_reg; pfam01037 398577014940 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 398577014941 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 398577014942 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 398577014943 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 398577014944 homodimer interface [polypeptide binding]; other site 398577014945 substrate-cofactor binding pocket; other site 398577014946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577014947 catalytic residue [active] 398577014948 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577014949 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 398577014950 dimer interface [polypeptide binding]; other site 398577014951 conserved gate region; other site 398577014952 putative PBP binding loops; other site 398577014953 ABC-ATPase subunit interface; other site 398577014954 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577014955 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 398577014956 dimer interface [polypeptide binding]; other site 398577014957 conserved gate region; other site 398577014958 putative PBP binding loops; other site 398577014959 ABC-ATPase subunit interface; other site 398577014960 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398577014961 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 398577014962 substrate binding pocket [chemical binding]; other site 398577014963 membrane-bound complex binding site; other site 398577014964 hinge residues; other site 398577014965 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 398577014966 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577014967 Walker A/P-loop; other site 398577014968 ATP binding site [chemical binding]; other site 398577014969 Q-loop/lid; other site 398577014970 ABC transporter signature motif; other site 398577014971 Walker B; other site 398577014972 D-loop; other site 398577014973 H-loop/switch region; other site 398577014974 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 398577014975 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577014976 NAD(P) binding site [chemical binding]; other site 398577014977 catalytic residues [active] 398577014978 homoserine dehydrogenase; Provisional; Region: PRK06270 398577014979 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 398577014980 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 398577014981 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577014982 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 398577014983 putative DNA binding site [nucleotide binding]; other site 398577014984 putative Zn2+ binding site [ion binding]; other site 398577014985 AsnC family; Region: AsnC_trans_reg; pfam01037 398577014986 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 398577014987 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398577014988 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398577014989 TIGR03118 family protein; Region: PEPCTERM_chp_1 398577014990 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 398577014991 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 398577014992 Protein of unknown function, DUF488; Region: DUF488; pfam04343 398577014993 hypothetical protein; Provisional; Region: PRK10621 398577014994 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 398577014995 NnrU protein; Region: NnrU; pfam07298 398577014996 TfoX N-terminal domain; Region: TfoX_N; pfam04993 398577014997 putative dehydrogenase; Provisional; Region: PRK10098 398577014998 hypothetical protein; Provisional; Region: PRK07907 398577014999 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 398577015000 metal binding site [ion binding]; metal-binding site 398577015001 putative dimer interface [polypeptide binding]; other site 398577015002 arginine:agmatin antiporter; Provisional; Region: PRK10644 398577015003 arginine decarboxylase; Provisional; Region: PRK15029 398577015004 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 398577015005 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 398577015006 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577015007 catalytic residue [active] 398577015008 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 398577015009 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 398577015010 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 398577015011 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398577015012 conserved cys residue [active] 398577015013 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015014 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 398577015015 active site residue [active] 398577015016 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 398577015017 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 398577015018 Cytochrome P450; Region: p450; cl12078 398577015019 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 398577015020 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 398577015021 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 398577015022 tetramer interface [polypeptide binding]; other site 398577015023 active site 398577015024 Mg2+/Mn2+ binding site [ion binding]; other site 398577015025 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 398577015026 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 398577015027 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 398577015028 putative active site [active] 398577015029 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 398577015030 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 398577015031 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 398577015032 active site 398577015033 phosphorylation site [posttranslational modification] 398577015034 intermolecular recognition site; other site 398577015035 dimerization interface [polypeptide binding]; other site 398577015036 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 398577015037 DNA binding site [nucleotide binding] 398577015038 HAMP domain; Region: HAMP; pfam00672 398577015039 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 398577015040 dimer interface [polypeptide binding]; other site 398577015041 phosphorylation site [posttranslational modification] 398577015042 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 398577015043 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 398577015044 ATP binding site [chemical binding]; other site 398577015045 Mg2+ binding site [ion binding]; other site 398577015046 G-X-G motif; other site 398577015047 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398577015048 MarR family; Region: MarR_2; pfam12802 398577015049 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 398577015050 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 398577015051 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577015052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015053 The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold; Region: PBP2_BlaA; cd08487 398577015054 putative dimerization interface [polypeptide binding]; other site 398577015055 putative substrate binding pocket [chemical binding]; other site 398577015056 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 398577015057 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 398577015058 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 398577015059 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 398577015060 Autotransporter beta-domain; Region: Autotransporter; pfam03797 398577015061 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 398577015062 putative active site [active] 398577015063 rod shape-determining protein MreB; Provisional; Region: PRK13930 398577015064 MreB and similar proteins; Region: MreB_like; cd10225 398577015065 nucleotide binding site [chemical binding]; other site 398577015066 Mg binding site [ion binding]; other site 398577015067 putative protofilament interaction site [polypeptide binding]; other site 398577015068 RodZ interaction site [polypeptide binding]; other site 398577015069 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398577015070 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 398577015071 active site 398577015072 nucleophile elbow; other site 398577015073 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 398577015074 Surface antigen; Region: Bac_surface_Ag; pfam01103 398577015075 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 398577015076 dimer interface [polypeptide binding]; other site 398577015077 phosphorylation site [posttranslational modification] 398577015078 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 398577015079 ATP binding site [chemical binding]; other site 398577015080 Mg2+ binding site [ion binding]; other site 398577015081 G-X-G motif; other site 398577015082 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 398577015083 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 398577015084 active site 398577015085 phosphorylation site [posttranslational modification] 398577015086 intermolecular recognition site; other site 398577015087 dimerization interface [polypeptide binding]; other site 398577015088 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 398577015089 DNA binding site [nucleotide binding] 398577015090 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 398577015091 glutaminase; Provisional; Region: PRK00971 398577015092 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 398577015093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015094 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 398577015095 dimerization interface [polypeptide binding]; other site 398577015096 Isochorismatase family; Region: Isochorismatase; pfam00857 398577015097 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 398577015098 catalytic triad [active] 398577015099 conserved cis-peptide bond; other site 398577015100 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 398577015101 B1 nucleotide binding pocket [chemical binding]; other site 398577015102 B2 nucleotide binding pocket [chemical binding]; other site 398577015103 CAS motifs; other site 398577015104 active site 398577015105 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577015106 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 398577015107 non-specific DNA binding site [nucleotide binding]; other site 398577015108 salt bridge; other site 398577015109 sequence-specific DNA binding site [nucleotide binding]; other site 398577015110 HD domain; Region: HD_3; pfam13023 398577015111 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 398577015112 S-adenosylmethionine binding site [chemical binding]; other site 398577015113 Protein of unknown function; Region: DUF3658; pfam12395 398577015114 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577015115 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015116 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 398577015117 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 398577015118 substrate binding site [chemical binding]; other site 398577015119 oxyanion hole (OAH) forming residues; other site 398577015120 trimer interface [polypeptide binding]; other site 398577015121 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 398577015122 enoyl-CoA hydratase; Provisional; Region: PRK09076 398577015123 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 398577015124 substrate binding site [chemical binding]; other site 398577015125 oxyanion hole (OAH) forming residues; other site 398577015126 trimer interface [polypeptide binding]; other site 398577015127 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398577015128 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 398577015129 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 398577015130 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 398577015131 tetrameric interface [polypeptide binding]; other site 398577015132 NAD binding site [chemical binding]; other site 398577015133 catalytic residues [active] 398577015134 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398577015135 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 398577015136 active site 398577015137 acyl-activating enzyme (AAE) consensus motif; other site 398577015138 putative CoA binding site [chemical binding]; other site 398577015139 AMP binding site [chemical binding]; other site 398577015140 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577015141 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577015142 active site 398577015143 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577015144 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577015145 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015146 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 398577015147 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 398577015148 active site residues [active] 398577015149 dimer interface [polypeptide binding]; other site 398577015150 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 398577015151 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 398577015152 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 398577015153 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 398577015154 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 398577015155 active site 398577015156 short chain dehydrogenase; Validated; Region: PRK05855 398577015157 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577015158 classical (c) SDRs; Region: SDR_c; cd05233 398577015159 NAD(P) binding site [chemical binding]; other site 398577015160 active site 398577015161 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 398577015162 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 398577015163 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 398577015164 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398577015165 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577015166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015167 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 398577015168 dimerization interface [polypeptide binding]; other site 398577015169 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398577015170 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398577015171 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 398577015172 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 398577015173 GAF domain; Region: GAF; pfam01590 398577015174 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 398577015175 Walker A motif; other site 398577015176 ATP binding site [chemical binding]; other site 398577015177 Walker B motif; other site 398577015178 arginine finger; other site 398577015179 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577015180 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 398577015181 catalytic loop [active] 398577015182 iron binding site [ion binding]; other site 398577015183 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 398577015184 putative hydrophobic ligand binding site [chemical binding]; other site 398577015185 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 398577015186 CopC domain; Region: CopC; pfam04234 398577015187 Protein of unknown function (DUF461); Region: DUF461; pfam04314 398577015188 Leucine rich repeat; Region: LRR_8; pfam13855 398577015189 Leucine rich repeat; Region: LRR_8; pfam13855 398577015190 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398577015191 active site 398577015192 ATP binding site [chemical binding]; other site 398577015193 substrate binding site [chemical binding]; other site 398577015194 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 398577015195 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 398577015196 PYR/PP interface [polypeptide binding]; other site 398577015197 dimer interface [polypeptide binding]; other site 398577015198 TPP binding site [chemical binding]; other site 398577015199 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 398577015200 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 398577015201 TPP-binding site [chemical binding]; other site 398577015202 dimer interface [polypeptide binding]; other site 398577015203 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015204 D-galactonate transporter; Region: 2A0114; TIGR00893 398577015205 putative substrate translocation pore; other site 398577015206 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577015207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577015208 NAD(P) binding site [chemical binding]; other site 398577015209 active site 398577015210 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577015211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015212 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 398577015213 dimerization interface [polypeptide binding]; other site 398577015214 substrate binding pocket [chemical binding]; other site 398577015215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577015216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015217 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 398577015218 putative dimerization interface [polypeptide binding]; other site 398577015219 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 398577015220 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 398577015221 inhibitor-cofactor binding pocket; inhibition site 398577015222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577015223 catalytic residue [active] 398577015224 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398577015225 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 398577015226 NADP binding site [chemical binding]; other site 398577015227 active site 398577015228 steroid binding site; other site 398577015229 Cupin; Region: Cupin_6; pfam12852 398577015230 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577015231 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015232 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015233 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577015234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015235 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577015236 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015237 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 398577015238 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 398577015239 dimerization interface [polypeptide binding]; other site 398577015240 putative Zn2+ binding site [ion binding]; other site 398577015241 putative DNA binding site [nucleotide binding]; other site 398577015242 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 398577015243 active site 398577015244 NTP binding site [chemical binding]; other site 398577015245 metal binding triad [ion binding]; metal-binding site 398577015246 antibiotic binding site [chemical binding]; other site 398577015247 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398577015248 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398577015249 Walker A/P-loop; other site 398577015250 ATP binding site [chemical binding]; other site 398577015251 Q-loop/lid; other site 398577015252 ABC transporter signature motif; other site 398577015253 Walker B; other site 398577015254 D-loop; other site 398577015255 H-loop/switch region; other site 398577015256 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 398577015257 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398577015258 Walker A/P-loop; other site 398577015259 ATP binding site [chemical binding]; other site 398577015260 Q-loop/lid; other site 398577015261 ABC transporter signature motif; other site 398577015262 Walker B; other site 398577015263 D-loop; other site 398577015264 H-loop/switch region; other site 398577015265 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 398577015266 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 398577015267 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 398577015268 TM-ABC transporter signature motif; other site 398577015269 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577015270 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 398577015271 TM-ABC transporter signature motif; other site 398577015272 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577015273 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 398577015274 dimerization interface [polypeptide binding]; other site 398577015275 ligand binding site [chemical binding]; other site 398577015276 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 398577015277 PAAR motif; Region: PAAR_motif; pfam05488 398577015278 RHS Repeat; Region: RHS_repeat; pfam05593 398577015279 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398577015280 RHS Repeat; Region: RHS_repeat; pfam05593 398577015281 RHS Repeat; Region: RHS_repeat; cl11982 398577015282 RHS Repeat; Region: RHS_repeat; pfam05593 398577015283 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 398577015284 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398577015285 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 398577015286 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398577015287 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577015288 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577015289 putative outer membrane lipoprotein; Provisional; Region: PRK09967 398577015290 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577015291 ligand binding site [chemical binding]; other site 398577015292 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 398577015293 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 398577015294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577015295 metal binding site [ion binding]; metal-binding site 398577015296 active site 398577015297 I-site; other site 398577015298 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 398577015299 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577015300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015301 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 398577015302 putative dimerization interface [polypeptide binding]; other site 398577015303 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 398577015304 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 398577015305 active site 398577015306 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 398577015307 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015308 D-galactonate transporter; Region: 2A0114; TIGR00893 398577015309 putative substrate translocation pore; other site 398577015310 amidase; Provisional; Region: PRK09201 398577015311 Amidase; Region: Amidase; cl11426 398577015312 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577015313 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577015314 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398577015315 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398577015316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577015317 DNA-binding site [nucleotide binding]; DNA binding site 398577015318 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398577015319 Amidohydrolase; Region: Amidohydro_2; pfam04909 398577015320 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398577015321 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 398577015322 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398577015323 putative ligand binding site [chemical binding]; other site 398577015324 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577015325 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 398577015326 TM-ABC transporter signature motif; other site 398577015327 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398577015328 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577015329 Walker A/P-loop; other site 398577015330 ATP binding site [chemical binding]; other site 398577015331 Q-loop/lid; other site 398577015332 ABC transporter signature motif; other site 398577015333 Walker B; other site 398577015334 D-loop; other site 398577015335 H-loop/switch region; other site 398577015336 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577015337 short chain dehydrogenase; Provisional; Region: PRK08628 398577015338 classical (c) SDRs; Region: SDR_c; cd05233 398577015339 NAD(P) binding site [chemical binding]; other site 398577015340 active site 398577015341 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 398577015342 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398577015343 putative active site pocket [active] 398577015344 metal binding site [ion binding]; metal-binding site 398577015345 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 398577015346 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577015347 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 398577015348 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 398577015349 NAD binding site [chemical binding]; other site 398577015350 homotetramer interface [polypeptide binding]; other site 398577015351 homodimer interface [polypeptide binding]; other site 398577015352 active site 398577015353 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398577015354 short chain dehydrogenase; Provisional; Region: PRK06197 398577015355 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 398577015356 putative NAD(P) binding site [chemical binding]; other site 398577015357 active site 398577015358 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577015359 Protein of unknown function (DUF971); Region: DUF971; cl01414 398577015360 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 398577015361 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 398577015362 substrate binding pocket [chemical binding]; other site 398577015363 active site 398577015364 iron coordination sites [ion binding]; other site 398577015365 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398577015366 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 398577015367 active site 398577015368 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 398577015369 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398577015370 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577015371 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 398577015372 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 398577015373 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 398577015374 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398577015375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015376 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 398577015377 dimerization interface [polypeptide binding]; other site 398577015378 malic enzyme; Reviewed; Region: PRK12861 398577015379 Malic enzyme, N-terminal domain; Region: malic; pfam00390 398577015380 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 398577015381 putative NAD(P) binding site [chemical binding]; other site 398577015382 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 398577015383 Methyltransferase domain; Region: Methyltransf_31; pfam13847 398577015384 Methyltransferase domain; Region: Methyltransf_24; pfam13578 398577015385 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 398577015386 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 398577015387 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577015388 catalytic residue [active] 398577015389 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 398577015390 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 398577015391 Sulfate transporter family; Region: Sulfate_transp; pfam00916 398577015392 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 398577015393 Uncharacterized conserved protein [Function unknown]; Region: COG3025 398577015394 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 398577015395 putative active site [active] 398577015396 putative metal binding residues [ion binding]; other site 398577015397 signature motif; other site 398577015398 putative triphosphate binding site [ion binding]; other site 398577015399 CHAD domain; Region: CHAD; pfam05235 398577015400 Cytochrome c; Region: Cytochrom_C; pfam00034 398577015401 Cytochrome c; Region: Cytochrom_C; pfam00034 398577015402 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 398577015403 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 398577015404 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577015405 Methylamine utilisation protein MauE; Region: MauE; pfam07291 398577015406 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 398577015407 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577015408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015409 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577015410 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398577015411 conserved cys residue [active] 398577015412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015413 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 398577015414 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 398577015415 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 398577015416 Zn binding site [ion binding]; other site 398577015417 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase; Region: M28_AAP; cd03879 398577015418 Peptidase family M28; Region: Peptidase_M28; pfam04389 398577015419 active site 398577015420 metal binding site [ion binding]; metal-binding site 398577015421 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 398577015422 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 398577015423 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 398577015424 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 398577015425 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 398577015426 N-terminal plug; other site 398577015427 ligand-binding site [chemical binding]; other site 398577015428 H+ Antiporter protein; Region: 2A0121; TIGR00900 398577015429 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015430 putative substrate translocation pore; other site 398577015431 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577015432 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 398577015433 trimer interface [polypeptide binding]; other site 398577015434 eyelet of channel; other site 398577015435 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 398577015436 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 398577015437 choline-sulfatase; Region: chol_sulfatase; TIGR03417 398577015438 Sulfatase; Region: Sulfatase; cl17466 398577015439 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 398577015440 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 398577015441 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015442 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 398577015443 dimerization interface [polypeptide binding]; other site 398577015444 substrate binding pocket [chemical binding]; other site 398577015445 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 398577015446 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 398577015447 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 398577015448 putative active site [active] 398577015449 putative substrate binding site [chemical binding]; other site 398577015450 putative cosubstrate binding site; other site 398577015451 catalytic site [active] 398577015452 Amino acid permease; Region: AA_permease_2; pfam13520 398577015453 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 398577015454 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 398577015455 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398577015456 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 398577015457 FAD binding pocket [chemical binding]; other site 398577015458 FAD binding motif [chemical binding]; other site 398577015459 phosphate binding motif [ion binding]; other site 398577015460 beta-alpha-beta structure motif; other site 398577015461 NAD binding pocket [chemical binding]; other site 398577015462 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 398577015463 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 398577015464 catalytic loop [active] 398577015465 iron binding site [ion binding]; other site 398577015466 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398577015467 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 398577015468 [2Fe-2S] cluster binding site [ion binding]; other site 398577015469 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 398577015470 putative alpha subunit interface [polypeptide binding]; other site 398577015471 putative active site [active] 398577015472 putative substrate binding site [chemical binding]; other site 398577015473 Fe binding site [ion binding]; other site 398577015474 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 398577015475 Electron transfer flavoprotein domain; Region: ETF; pfam01012 398577015476 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 398577015477 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 398577015478 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 398577015479 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 398577015480 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398577015481 4Fe-4S binding domain; Region: Fer4; cl02805 398577015482 Cysteine-rich domain; Region: CCG; pfam02754 398577015483 Cysteine-rich domain; Region: CCG; pfam02754 398577015484 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 398577015485 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 398577015486 putative active site [active] 398577015487 putative FMN binding site [chemical binding]; other site 398577015488 putative substrate binding site [chemical binding]; other site 398577015489 putative catalytic residue [active] 398577015490 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577015491 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 398577015492 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 398577015493 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 398577015494 active site 398577015495 dimer interface [polypeptide binding]; other site 398577015496 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 398577015497 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 398577015498 dimer interface [polypeptide binding]; other site 398577015499 active site 398577015500 glycine-pyridoxal phosphate binding site [chemical binding]; other site 398577015501 folate binding site [chemical binding]; other site 398577015502 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577015503 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398577015504 conserved cys residue [active] 398577015505 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015506 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 398577015507 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 398577015508 sugar binding site [chemical binding]; other site 398577015509 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 398577015510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577015511 DNA-binding site [nucleotide binding]; DNA binding site 398577015512 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 398577015513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577015514 homodimer interface [polypeptide binding]; other site 398577015515 catalytic residue [active] 398577015516 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 398577015517 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 398577015518 NAD binding site [chemical binding]; other site 398577015519 catalytic Zn binding site [ion binding]; other site 398577015520 structural Zn binding site [ion binding]; other site 398577015521 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 398577015522 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577015523 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577015524 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577015525 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 398577015526 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 398577015527 Ligand binding site; other site 398577015528 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577015529 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015530 putative substrate translocation pore; other site 398577015531 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015532 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 398577015533 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 398577015534 active site 398577015535 TDP-binding site; other site 398577015536 acceptor substrate-binding pocket; other site 398577015537 homodimer interface [polypeptide binding]; other site 398577015538 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 398577015539 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577015540 transcriptional regulator BetI; Validated; Region: PRK00767 398577015541 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577015542 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 398577015543 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 398577015544 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 398577015545 tetrameric interface [polypeptide binding]; other site 398577015546 NAD binding site [chemical binding]; other site 398577015547 catalytic residues [active] 398577015548 choline dehydrogenase; Validated; Region: PRK02106 398577015549 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577015550 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 398577015551 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 398577015552 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 398577015553 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 398577015554 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398577015555 Walker A/P-loop; other site 398577015556 ATP binding site [chemical binding]; other site 398577015557 Q-loop/lid; other site 398577015558 ABC transporter signature motif; other site 398577015559 Walker B; other site 398577015560 D-loop; other site 398577015561 H-loop/switch region; other site 398577015562 ABC-2 type transporter; Region: ABC2_membrane; cl17235 398577015563 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398577015564 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398577015565 PAS fold; Region: PAS_4; pfam08448 398577015566 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577015567 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 398577015568 dimer interface [polypeptide binding]; other site 398577015569 phosphorylation site [posttranslational modification] 398577015570 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 398577015571 ATP binding site [chemical binding]; other site 398577015572 G-X-G motif; other site 398577015573 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398577015574 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 398577015575 active site 398577015576 phosphorylation site [posttranslational modification] 398577015577 intermolecular recognition site; other site 398577015578 dimerization interface [polypeptide binding]; other site 398577015579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 398577015580 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 398577015581 Lipase (class 2); Region: Lipase_2; pfam01674 398577015582 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 398577015583 catalytic site [active] 398577015584 Putative esterase; Region: Esterase; pfam00756 398577015585 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 398577015586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577015587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015588 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 398577015589 putative effector binding pocket; other site 398577015590 putative dimerization interface [polypeptide binding]; other site 398577015591 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 398577015592 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577015593 active site 398577015594 catalytic tetrad [active] 398577015595 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 398577015596 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 398577015597 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 398577015598 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 398577015599 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 398577015600 putative ligand binding site [chemical binding]; other site 398577015601 NAD binding site [chemical binding]; other site 398577015602 catalytic site [active] 398577015603 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 398577015604 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 398577015605 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 398577015606 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 398577015607 Walker A/P-loop; other site 398577015608 ATP binding site [chemical binding]; other site 398577015609 Q-loop/lid; other site 398577015610 ABC transporter signature motif; other site 398577015611 Walker B; other site 398577015612 D-loop; other site 398577015613 H-loop/switch region; other site 398577015614 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 398577015615 ABC-ATPase subunit interface; other site 398577015616 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398577015617 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 398577015618 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577015619 catalytic residue [active] 398577015620 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 398577015621 active site 398577015622 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 398577015623 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 398577015624 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 398577015625 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577015626 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 398577015627 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 398577015628 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 398577015629 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398577015630 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 398577015631 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 398577015632 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 398577015633 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577015634 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398577015635 conserved cys residue [active] 398577015636 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398577015637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015638 Transcriptional regulators [Transcription]; Region: FadR; COG2186 398577015639 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577015640 DNA-binding site [nucleotide binding]; DNA binding site 398577015641 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398577015642 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398577015643 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398577015644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 398577015645 putative aldolase; Validated; Region: PRK08130 398577015646 intersubunit interface [polypeptide binding]; other site 398577015647 active site 398577015648 Zn2+ binding site [ion binding]; other site 398577015649 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015650 D-galactonate transporter; Region: 2A0114; TIGR00893 398577015651 putative substrate translocation pore; other site 398577015652 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 398577015653 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577015654 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 398577015655 putative NAD(P) binding site [chemical binding]; other site 398577015656 active site 398577015657 putative substrate binding site [chemical binding]; other site 398577015658 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 398577015659 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 398577015660 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 398577015661 ligand binding site; other site 398577015662 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 398577015663 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577015664 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577015665 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 398577015666 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577015667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015668 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 398577015669 dimerization interface [polypeptide binding]; other site 398577015670 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 398577015671 Ubiquitin-like proteins; Region: UBQ; cl00155 398577015672 charged pocket; other site 398577015673 hydrophobic patch; other site 398577015674 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 398577015675 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 398577015676 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 398577015677 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577015678 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 398577015679 conserved cys residue [active] 398577015680 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 398577015681 metal binding site [ion binding]; metal-binding site 398577015682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577015684 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 398577015685 dimer interface [polypeptide binding]; other site 398577015686 conserved gate region; other site 398577015687 putative PBP binding loops; other site 398577015688 ABC-ATPase subunit interface; other site 398577015689 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 398577015690 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 398577015691 Walker A/P-loop; other site 398577015692 ATP binding site [chemical binding]; other site 398577015693 Q-loop/lid; other site 398577015694 ABC transporter signature motif; other site 398577015695 Walker B; other site 398577015696 D-loop; other site 398577015697 H-loop/switch region; other site 398577015698 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 398577015699 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 398577015700 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 398577015701 NIPSNAP; Region: NIPSNAP; pfam07978 398577015702 Predicted flavoprotein [General function prediction only]; Region: COG0431 398577015703 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577015704 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 398577015705 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398577015706 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577015707 ligand binding site [chemical binding]; other site 398577015708 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 398577015709 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 398577015710 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 398577015711 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 398577015712 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 398577015713 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 398577015714 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 398577015715 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398577015716 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398577015717 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398577015718 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 398577015719 carboxyltransferase (CT) interaction site; other site 398577015720 biotinylation site [posttranslational modification]; other site 398577015721 enoyl-CoA hydratase; Provisional; Region: PRK05995 398577015722 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 398577015723 substrate binding site [chemical binding]; other site 398577015724 oxyanion hole (OAH) forming residues; other site 398577015725 trimer interface [polypeptide binding]; other site 398577015726 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 398577015727 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 398577015728 isovaleryl-CoA dehydrogenase; Region: PLN02519 398577015729 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 398577015730 substrate binding site [chemical binding]; other site 398577015731 FAD binding site [chemical binding]; other site 398577015732 catalytic base [active] 398577015733 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577015734 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577015735 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 398577015736 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398577015737 MarR family; Region: MarR; pfam01047 398577015738 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398577015739 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 398577015740 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 398577015741 alpha subunit interface [polypeptide binding]; other site 398577015742 active site 398577015743 substrate binding site [chemical binding]; other site 398577015744 Fe binding site [ion binding]; other site 398577015745 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398577015746 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 398577015747 FMN-binding pocket [chemical binding]; other site 398577015748 flavin binding motif; other site 398577015749 phosphate binding motif [ion binding]; other site 398577015750 beta-alpha-beta structure motif; other site 398577015751 NAD binding pocket [chemical binding]; other site 398577015752 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 398577015753 catalytic loop [active] 398577015754 iron binding site [ion binding]; other site 398577015755 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 398577015756 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398577015757 iron-sulfur cluster [ion binding]; other site 398577015758 [2Fe-2S] cluster binding site [ion binding]; other site 398577015759 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 398577015760 alpha subunit interface [polypeptide binding]; other site 398577015761 active site 398577015762 substrate binding site [chemical binding]; other site 398577015763 Fe binding site [ion binding]; other site 398577015764 benzoate transport; Region: 2A0115; TIGR00895 398577015765 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015766 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015767 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577015768 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 398577015769 trimer interface [polypeptide binding]; other site 398577015770 eyelet of channel; other site 398577015771 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398577015772 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 398577015773 N-terminal plug; other site 398577015774 ligand-binding site [chemical binding]; other site 398577015775 putative oxidoreductase; Provisional; Region: PRK10083 398577015776 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 398577015777 putative NAD(P) binding site [chemical binding]; other site 398577015778 catalytic Zn binding site [ion binding]; other site 398577015779 structural Zn binding site [ion binding]; other site 398577015780 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 398577015781 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 398577015782 metal binding site [ion binding]; metal-binding site 398577015783 substrate binding pocket [chemical binding]; other site 398577015784 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398577015785 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577015786 DNA-binding site [nucleotide binding]; DNA binding site 398577015787 FCD domain; Region: FCD; pfam07729 398577015788 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 398577015789 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 398577015790 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 398577015791 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015792 D-galactonate transporter; Region: 2A0114; TIGR00893 398577015793 putative substrate translocation pore; other site 398577015794 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398577015795 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577015796 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 398577015797 trimer interface [polypeptide binding]; other site 398577015798 eyelet of channel; other site 398577015799 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398577015800 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398577015801 Coenzyme A binding pocket [chemical binding]; other site 398577015802 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 398577015803 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 398577015804 active site 398577015805 metal binding site [ion binding]; metal-binding site 398577015806 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 398577015807 dimerization interface [polypeptide binding]; other site 398577015808 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 398577015809 ATP binding site [chemical binding]; other site 398577015810 Mg2+ binding site [ion binding]; other site 398577015811 G-X-G motif; other site 398577015812 osmolarity response regulator; Provisional; Region: ompR; PRK09468 398577015813 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 398577015814 active site 398577015815 phosphorylation site [posttranslational modification] 398577015816 intermolecular recognition site; other site 398577015817 dimerization interface [polypeptide binding]; other site 398577015818 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 398577015819 DNA binding site [nucleotide binding] 398577015820 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 398577015821 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577015822 catalytic residues [active] 398577015823 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 398577015824 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 398577015825 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577015826 DNA-binding site [nucleotide binding]; DNA binding site 398577015827 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 398577015828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577015829 homodimer interface [polypeptide binding]; other site 398577015830 catalytic residue [active] 398577015831 Transglycosylase; Region: Transgly; pfam00912 398577015832 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 398577015833 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398577015834 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 398577015835 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 398577015836 active site 398577015837 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398577015838 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577015839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015840 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 398577015841 dimerization interface [polypeptide binding]; other site 398577015842 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 398577015843 active site 398577015844 tetramer interface [polypeptide binding]; other site 398577015845 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577015846 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 398577015847 trimer interface [polypeptide binding]; other site 398577015848 eyelet of channel; other site 398577015849 benzoate transport; Region: 2A0115; TIGR00895 398577015850 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015851 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 398577015852 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 398577015853 Mechanosensitive ion channel; Region: MS_channel; pfam00924 398577015854 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398577015855 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 398577015856 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577015857 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577015858 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 398577015859 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 398577015860 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398577015861 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577015862 Walker A/P-loop; other site 398577015863 ATP binding site [chemical binding]; other site 398577015864 Q-loop/lid; other site 398577015865 ABC transporter signature motif; other site 398577015866 Walker B; other site 398577015867 D-loop; other site 398577015868 H-loop/switch region; other site 398577015869 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 398577015870 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 398577015871 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577015872 aldehyde dehydrogenase family 7 member; Region: PLN02315 398577015873 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 398577015874 tetrameric interface [polypeptide binding]; other site 398577015875 NAD binding site [chemical binding]; other site 398577015876 catalytic residues [active] 398577015877 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577015878 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577015879 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577015880 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577015881 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577015882 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398577015883 putative active site [active] 398577015884 catalytic site [active] 398577015885 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 398577015886 putative active site [active] 398577015887 catalytic site [active] 398577015888 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398577015889 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 398577015890 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 398577015891 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 398577015892 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 398577015893 homodimer interface [polypeptide binding]; other site 398577015894 NAD binding pocket [chemical binding]; other site 398577015895 ATP binding pocket [chemical binding]; other site 398577015896 Mg binding site [ion binding]; other site 398577015897 active-site loop [active] 398577015898 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 398577015899 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 398577015900 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 398577015901 peptidase domain interface [polypeptide binding]; other site 398577015902 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 398577015903 active site 398577015904 catalytic triad [active] 398577015905 calcium binding site [ion binding]; other site 398577015906 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577015907 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577015908 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 398577015909 putative DNA binding site [nucleotide binding]; other site 398577015910 putative Zn2+ binding site [ion binding]; other site 398577015911 AsnC family; Region: AsnC_trans_reg; pfam01037 398577015912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577015913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015914 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 398577015915 dimerization interface [polypeptide binding]; other site 398577015916 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 398577015917 agmatinase; Region: agmatinase; TIGR01230 398577015918 oligomer interface [polypeptide binding]; other site 398577015919 putative active site [active] 398577015920 Mn binding site [ion binding]; other site 398577015921 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577015922 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015923 putative substrate translocation pore; other site 398577015924 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 398577015925 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 398577015926 THF binding site; other site 398577015927 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 398577015928 substrate binding site [chemical binding]; other site 398577015929 THF binding site; other site 398577015930 zinc-binding site [ion binding]; other site 398577015931 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 398577015932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577015933 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 398577015934 putative dimerization interface [polypeptide binding]; other site 398577015935 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 398577015936 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 398577015937 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 398577015938 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 398577015939 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 398577015940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3826 398577015941 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015942 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577015943 putative substrate translocation pore; other site 398577015944 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 398577015945 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 398577015946 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 398577015947 NAD(P) binding site [chemical binding]; other site 398577015948 catalytic residues [active] 398577015949 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 398577015950 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 398577015951 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 398577015952 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 398577015953 conserved gate region; other site 398577015954 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 398577015955 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 398577015956 dimer interface [polypeptide binding]; other site 398577015957 conserved gate region; other site 398577015958 putative PBP binding loops; other site 398577015959 ABC-ATPase subunit interface; other site 398577015960 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 398577015961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577015962 Walker A/P-loop; other site 398577015963 ATP binding site [chemical binding]; other site 398577015964 Q-loop/lid; other site 398577015965 ABC transporter signature motif; other site 398577015966 Walker B; other site 398577015967 D-loop; other site 398577015968 H-loop/switch region; other site 398577015969 TOBE domain; Region: TOBE_2; pfam08402 398577015970 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 398577015971 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 398577015972 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 398577015973 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577015974 catalytic residue [active] 398577015975 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015976 D-galactonate transporter; Region: 2A0114; TIGR00893 398577015977 putative substrate translocation pore; other site 398577015978 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577015979 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 398577015980 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398577015981 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398577015982 shikimate binding site; other site 398577015983 NAD(P) binding site [chemical binding]; other site 398577015984 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 398577015985 Dehydroquinase class II; Region: DHquinase_II; pfam01220 398577015986 active site 398577015987 trimer interface [polypeptide binding]; other site 398577015988 dimer interface [polypeptide binding]; other site 398577015989 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 398577015990 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 398577015991 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 398577015992 dimer interface [polypeptide binding]; other site 398577015993 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 398577015994 active site 398577015995 Fe binding site [ion binding]; other site 398577015996 PAS fold; Region: PAS_4; pfam08448 398577015997 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 398577015998 putative active site [active] 398577015999 heme pocket [chemical binding]; other site 398577016000 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577016001 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577016002 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577016003 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577016004 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 398577016005 dimerization interface [polypeptide binding]; other site 398577016006 ligand binding site [chemical binding]; other site 398577016007 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577016008 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016009 putative substrate translocation pore; other site 398577016010 Predicted membrane protein [Function unknown]; Region: COG2259 398577016011 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 398577016012 SnoaL-like domain; Region: SnoaL_2; pfam12680 398577016013 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 398577016014 catalytic triad [active] 398577016015 conserved cis-peptide bond; other site 398577016016 galactarate dehydratase; Region: galactar-dH20; TIGR03248 398577016017 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398577016018 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398577016019 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398577016020 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 398577016021 putative active site [active] 398577016022 catalytic residue [active] 398577016023 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 398577016024 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 398577016025 dimer interface [polypeptide binding]; other site 398577016026 NADP binding site [chemical binding]; other site 398577016027 catalytic residues [active] 398577016028 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016029 D-galactonate transporter; Region: 2A0114; TIGR00893 398577016030 putative substrate translocation pore; other site 398577016031 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016032 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 398577016033 Peptidase family M50; Region: Peptidase_M50; pfam02163 398577016034 active site 398577016035 putative substrate binding region [chemical binding]; other site 398577016036 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 398577016037 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 398577016038 non-specific DNA binding site [nucleotide binding]; other site 398577016039 salt bridge; other site 398577016040 sequence-specific DNA binding site [nucleotide binding]; other site 398577016041 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 398577016042 trimer interface [polypeptide binding]; other site 398577016043 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 398577016044 trimer interface [polypeptide binding]; other site 398577016045 YadA-like C-terminal region; Region: YadA; pfam03895 398577016046 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 398577016047 Flavin binding site [chemical binding]; other site 398577016048 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 398577016049 dimer interface [polypeptide binding]; other site 398577016050 conserved gate region; other site 398577016051 ABC-ATPase subunit interface; other site 398577016052 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 398577016053 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 398577016054 Walker A/P-loop; other site 398577016055 ATP binding site [chemical binding]; other site 398577016056 Q-loop/lid; other site 398577016057 ABC transporter signature motif; other site 398577016058 Walker B; other site 398577016059 D-loop; other site 398577016060 H-loop/switch region; other site 398577016061 NIL domain; Region: NIL; pfam09383 398577016062 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 398577016063 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 398577016064 active site 398577016065 non-prolyl cis peptide bond; other site 398577016066 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398577016067 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 398577016068 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 398577016069 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 398577016070 dimer interface [polypeptide binding]; other site 398577016071 phosphorylation site [posttranslational modification] 398577016072 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 398577016073 ATP binding site [chemical binding]; other site 398577016074 Mg2+ binding site [ion binding]; other site 398577016075 G-X-G motif; other site 398577016076 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398577016077 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 398577016078 active site 398577016079 phosphorylation site [posttranslational modification] 398577016080 intermolecular recognition site; other site 398577016081 dimerization interface [polypeptide binding]; other site 398577016082 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 398577016083 Walker A motif; other site 398577016084 ATP binding site [chemical binding]; other site 398577016085 Walker B motif; other site 398577016086 arginine finger; other site 398577016087 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577016088 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 398577016089 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 398577016090 MarR family; Region: MarR_2; cl17246 398577016091 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577016092 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 398577016093 catalytic site [active] 398577016094 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398577016095 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 398577016096 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577016097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016098 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 398577016099 dimerization interface [polypeptide binding]; other site 398577016100 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577016101 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398577016102 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577016103 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577016104 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577016105 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 398577016106 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398577016107 substrate binding pocket [chemical binding]; other site 398577016108 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577016109 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577016110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016111 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 398577016112 putative effector binding pocket; other site 398577016113 putative dimerization interface [polypeptide binding]; other site 398577016114 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398577016115 H-NS histone family; Region: Histone_HNS; pfam00816 398577016116 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577016117 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577016118 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 398577016119 active site 398577016120 phosphorylation site [posttranslational modification] 398577016121 intermolecular recognition site; other site 398577016122 dimerization interface [polypeptide binding]; other site 398577016123 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 398577016124 DNA binding site [nucleotide binding] 398577016125 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577016126 Purine nucleoside permease (NUP); Region: NUP; pfam06516 398577016127 selenophosphate synthetase; Provisional; Region: PRK00943 398577016128 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 398577016129 dimerization interface [polypeptide binding]; other site 398577016130 putative ATP binding site [chemical binding]; other site 398577016131 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 398577016132 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 398577016133 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577016134 DNA-binding site [nucleotide binding]; DNA binding site 398577016135 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 398577016136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577016137 homodimer interface [polypeptide binding]; other site 398577016138 catalytic residue [active] 398577016139 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 398577016140 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 398577016141 inhibitor-cofactor binding pocket; inhibition site 398577016142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577016143 catalytic residue [active] 398577016144 succinic semialdehyde dehydrogenase; Region: PLN02278 398577016145 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398577016146 tetramerization interface [polypeptide binding]; other site 398577016147 NAD(P) binding site [chemical binding]; other site 398577016148 catalytic residues [active] 398577016149 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 398577016150 PAS domain; Region: PAS_9; pfam13426 398577016151 putative active site [active] 398577016152 heme pocket [chemical binding]; other site 398577016153 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398577016154 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577016155 dimer interface [polypeptide binding]; other site 398577016156 putative CheW interface [polypeptide binding]; other site 398577016157 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 398577016158 PAS domain; Region: PAS_9; pfam13426 398577016159 putative active site [active] 398577016160 heme pocket [chemical binding]; other site 398577016161 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 398577016162 dimerization interface [polypeptide binding]; other site 398577016163 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398577016164 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577016165 dimer interface [polypeptide binding]; other site 398577016166 putative CheW interface [polypeptide binding]; other site 398577016167 Uncharacterized conserved protein [Function unknown]; Region: COG1683 398577016168 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 398577016169 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 398577016170 dimer interface [polypeptide binding]; other site 398577016171 active site 398577016172 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 398577016173 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577016174 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577016175 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 398577016176 Predicted deacylase [General function prediction only]; Region: COG3608 398577016177 active site 398577016178 Zn binding site [ion binding]; other site 398577016179 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016180 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577016181 putative substrate translocation pore; other site 398577016182 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398577016183 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398577016184 metal binding site [ion binding]; metal-binding site 398577016185 putative dimer interface [polypeptide binding]; other site 398577016186 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577016187 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016188 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 398577016189 putative effector binding pocket; other site 398577016190 dimerization interface [polypeptide binding]; other site 398577016191 short chain dehydrogenase; Provisional; Region: PRK06500 398577016192 classical (c) SDRs; Region: SDR_c; cd05233 398577016193 NAD(P) binding site [chemical binding]; other site 398577016194 active site 398577016195 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577016196 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 398577016197 C-terminal domain interface [polypeptide binding]; other site 398577016198 GSH binding site (G-site) [chemical binding]; other site 398577016199 dimer interface [polypeptide binding]; other site 398577016200 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398577016201 N-terminal domain interface [polypeptide binding]; other site 398577016202 dimer interface [polypeptide binding]; other site 398577016203 substrate binding pocket (H-site) [chemical binding]; other site 398577016204 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398577016205 classical (c) SDRs; Region: SDR_c; cd05233 398577016206 NAD(P) binding site [chemical binding]; other site 398577016207 active site 398577016208 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577016209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016210 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 398577016211 dimerization interface [polypeptide binding]; other site 398577016212 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 398577016213 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 398577016214 dimer interface [polypeptide binding]; other site 398577016215 active site 398577016216 catalytic residue [active] 398577016217 metal binding site [ion binding]; metal-binding site 398577016218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 398577016219 pyruvate kinase; Provisional; Region: PRK06247 398577016220 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 398577016221 domain interfaces; other site 398577016222 active site 398577016223 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 398577016224 DctM-like transporters; Region: DctM; pfam06808 398577016225 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398577016226 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398577016227 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398577016228 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 398577016229 putative effector binding pocket; other site 398577016230 dimerization interface [polypeptide binding]; other site 398577016231 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 398577016232 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 398577016233 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 398577016234 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577016235 This alignment model represents the N-terminal rieske domain of the oxygenase alpha subunit of aminopyrrolnitrin oxygenase (PrnD). PrnD is a novel Rieske N-oxygenase that catalyzes the final step in the pyrrolnitrin biosynthetic pathway, the oxidation...; Region: Rieske_RO_Alpha_PrnD; cd03537 398577016236 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398577016237 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 398577016238 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 398577016239 putative NAD(P) binding site [chemical binding]; other site 398577016240 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577016241 TAP-like protein; Region: Abhydrolase_4; pfam08386 398577016242 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 398577016243 classical (c) SDRs; Region: SDR_c; cd05233 398577016244 NAD(P) binding site [chemical binding]; other site 398577016245 active site 398577016246 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398577016247 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 398577016248 FMN binding site [chemical binding]; other site 398577016249 active site 398577016250 substrate binding site [chemical binding]; other site 398577016251 catalytic residue [active] 398577016252 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577016253 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577016254 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577016255 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577016256 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577016257 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398577016258 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577016259 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 398577016260 Paraquat-inducible protein A; Region: PqiA; pfam04403 398577016261 Paraquat-inducible protein A; Region: PqiA; pfam04403 398577016262 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 398577016263 mce related protein; Region: MCE; pfam02470 398577016264 mce related protein; Region: MCE; pfam02470 398577016265 mce related protein; Region: MCE; pfam02470 398577016266 Protein of unknown function (DUF330); Region: DUF330; pfam03886 398577016267 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577016268 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577016269 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577016270 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 398577016271 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 398577016272 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577016273 putative active site [active] 398577016274 putative metal binding site [ion binding]; other site 398577016275 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 398577016276 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577016277 AMP-binding domain protein; Validated; Region: PRK07529 398577016278 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398577016279 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 398577016280 acyl-activating enzyme (AAE) consensus motif; other site 398577016281 putative AMP binding site [chemical binding]; other site 398577016282 putative active site [active] 398577016283 putative CoA binding site [chemical binding]; other site 398577016284 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 398577016285 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 398577016286 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 398577016287 molybdopterin cofactor binding site; other site 398577016288 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 398577016289 molybdopterin cofactor binding site; other site 398577016290 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 398577016291 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398577016292 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577016293 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577016294 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 398577016295 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 398577016296 NADP binding site [chemical binding]; other site 398577016297 dimer interface [polypeptide binding]; other site 398577016298 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 398577016299 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 398577016300 short chain dehydrogenase; Provisional; Region: PRK06180 398577016301 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398577016302 NADP binding site [chemical binding]; other site 398577016303 active site 398577016304 steroid binding site; other site 398577016305 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577016306 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577016307 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 398577016308 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 398577016309 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 398577016310 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577016311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016312 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 398577016313 putative effector binding pocket; other site 398577016314 dimerization interface [polypeptide binding]; other site 398577016315 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398577016316 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016317 putative substrate translocation pore; other site 398577016318 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 398577016319 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 398577016320 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 398577016321 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 398577016322 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577016323 active site 398577016324 catalytic tetrad [active] 398577016325 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398577016326 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 398577016327 FMN binding site [chemical binding]; other site 398577016328 active site 398577016329 substrate binding site [chemical binding]; other site 398577016330 catalytic residue [active] 398577016331 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 398577016332 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577016333 active site 398577016334 catalytic tetrad [active] 398577016335 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 398577016336 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 398577016337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577016338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577016339 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 398577016340 Probable transposase; Region: OrfB_IS605; pfam01385 398577016341 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577016342 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577016343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016344 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398577016345 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 398577016346 dimerization interface [polypeptide binding]; other site 398577016347 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 398577016348 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 398577016349 substrate binding pocket [chemical binding]; other site 398577016350 membrane-bound complex binding site; other site 398577016351 hinge residues; other site 398577016352 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 398577016353 Predicted deacylase [General function prediction only]; Region: COG3608 398577016354 active site 398577016355 Zn binding site [ion binding]; other site 398577016356 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 398577016357 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 398577016358 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577016359 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 398577016360 trimer interface [polypeptide binding]; other site 398577016361 eyelet of channel; other site 398577016362 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 398577016363 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 398577016364 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 398577016365 N-terminal plug; other site 398577016366 ligand-binding site [chemical binding]; other site 398577016367 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 398577016368 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 398577016369 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 398577016370 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 398577016371 intersubunit interface [polypeptide binding]; other site 398577016372 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 398577016373 ABC-type Fe3+-siderophore transport system, permease component [Inorganic ion transport and metabolism]; Region: FepD; COG0609 398577016374 putative PBP binding regions; other site 398577016375 ABC-ATPase subunit interface; other site 398577016376 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 398577016377 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 398577016378 Walker A/P-loop; other site 398577016379 ATP binding site [chemical binding]; other site 398577016380 Q-loop/lid; other site 398577016381 ABC transporter signature motif; other site 398577016382 Walker B; other site 398577016383 D-loop; other site 398577016384 H-loop/switch region; other site 398577016385 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577016386 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 398577016387 active site 398577016388 Predicted membrane protein [Function unknown]; Region: COG2860 398577016389 UPF0126 domain; Region: UPF0126; pfam03458 398577016390 UPF0126 domain; Region: UPF0126; pfam03458 398577016391 Transglycosylase; Region: Transgly; pfam00912 398577016392 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 398577016393 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 398577016394 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 398577016395 AAA domain; Region: AAA_23; pfam13476 398577016396 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577016397 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577016398 Walker A/P-loop; other site 398577016399 Walker A/P-loop; other site 398577016400 ATP binding site [chemical binding]; other site 398577016401 ATP binding site [chemical binding]; other site 398577016402 Q-loop/lid; other site 398577016403 hypothetical protein; Provisional; Region: PRK11171 398577016404 Cupin domain; Region: Cupin_2; pfam07883 398577016405 Cupin domain; Region: Cupin_2; pfam07883 398577016406 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 398577016407 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 398577016408 HIT family signature motif; other site 398577016409 catalytic residue [active] 398577016410 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398577016411 Beta-lactamase; Region: Beta-lactamase; pfam00144 398577016412 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577016413 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 398577016414 putative C-terminal domain interface [polypeptide binding]; other site 398577016415 putative GSH binding site (G-site) [chemical binding]; other site 398577016416 putative dimer interface [polypeptide binding]; other site 398577016417 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 398577016418 putative N-terminal domain interface [polypeptide binding]; other site 398577016419 putative dimer interface [polypeptide binding]; other site 398577016420 putative substrate binding pocket (H-site) [chemical binding]; other site 398577016421 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 398577016422 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 398577016423 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 398577016424 putative NAD(P) binding site [chemical binding]; other site 398577016425 active site 398577016426 DoxX-like family; Region: DoxX_3; pfam13781 398577016427 Predicted transcriptional regulators [Transcription]; Region: COG1510 398577016428 MarR family; Region: MarR_2; pfam12802 398577016429 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 398577016430 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 398577016431 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 398577016432 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 398577016433 short chain dehydrogenase; Validated; Region: PRK08264 398577016434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577016435 NAD(P) binding site [chemical binding]; other site 398577016436 active site 398577016437 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577016438 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577016439 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 398577016440 putative hydrophobic ligand binding site [chemical binding]; other site 398577016441 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 398577016442 putative hydrophobic ligand binding site [chemical binding]; other site 398577016443 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 398577016444 Amidohydrolase; Region: Amidohydro_2; pfam04909 398577016445 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398577016446 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016447 putative substrate translocation pore; other site 398577016448 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577016449 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577016450 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398577016451 active site 398577016452 catalytic residues [active] 398577016453 metal binding site [ion binding]; metal-binding site 398577016454 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577016455 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577016456 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577016457 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 398577016458 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 398577016459 putative catalytic residue [active] 398577016460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577016461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016462 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 398577016463 putative effector binding pocket; other site 398577016464 dimerization interface [polypeptide binding]; other site 398577016465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016466 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577016467 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 398577016468 active site 398577016469 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 398577016470 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 398577016471 C-terminal domain interface [polypeptide binding]; other site 398577016472 GSH binding site (G-site) [chemical binding]; other site 398577016473 dimer interface [polypeptide binding]; other site 398577016474 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 398577016475 N-terminal domain interface [polypeptide binding]; other site 398577016476 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398577016477 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 398577016478 active site residue [active] 398577016479 SurA N-terminal domain; Region: SurA_N_3; cl07813 398577016480 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 398577016481 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 398577016482 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 398577016483 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 398577016484 haemagglutination activity domain; Region: Haemagg_act; pfam05860 398577016485 haemagglutination activity domain; Region: Haemagg_act; pfam05860 398577016486 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 398577016487 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 398577016488 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 398577016489 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016490 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 398577016491 putative dimerization interface [polypeptide binding]; other site 398577016492 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 398577016493 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 398577016494 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 398577016495 tetramer interface [polypeptide binding]; other site 398577016496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577016497 catalytic residue [active] 398577016498 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 398577016499 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398577016500 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398577016501 Sulfatase; Region: Sulfatase; cl17466 398577016502 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 398577016503 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398577016504 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398577016505 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398577016506 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 398577016507 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 398577016508 Uncharacterized conserved protein [Function unknown]; Region: COG5361 398577016509 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 398577016510 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 398577016511 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 398577016512 metal-binding site [ion binding] 398577016513 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 398577016514 metal-binding site [ion binding] 398577016515 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 398577016516 metal-binding site [ion binding] 398577016517 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 398577016518 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398577016519 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398577016520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577016521 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 398577016522 Coenzyme A binding pocket [chemical binding]; other site 398577016523 MgtC family; Region: MgtC; pfam02308 398577016524 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 398577016525 dimerization interface [polypeptide binding]; other site 398577016526 putative active cleft [active] 398577016527 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 398577016528 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 398577016529 dimer interface [polypeptide binding]; other site 398577016530 ligand binding site [chemical binding]; other site 398577016531 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577016532 dimer interface [polypeptide binding]; other site 398577016533 putative CheW interface [polypeptide binding]; other site 398577016534 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 398577016535 CoenzymeA binding site [chemical binding]; other site 398577016536 subunit interaction site [polypeptide binding]; other site 398577016537 PHB binding site; other site 398577016538 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 398577016539 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 398577016540 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577016541 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577016542 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 398577016543 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 398577016544 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 398577016545 substrate binding site [chemical binding]; other site 398577016546 ligand binding site [chemical binding]; other site 398577016547 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 398577016548 substrate binding site [chemical binding]; other site 398577016549 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 398577016550 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 398577016551 dimer interface [polypeptide binding]; other site 398577016552 active site 398577016553 citrylCoA binding site [chemical binding]; other site 398577016554 oxalacetate/citrate binding site [chemical binding]; other site 398577016555 coenzyme A binding site [chemical binding]; other site 398577016556 catalytic triad [active] 398577016557 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 398577016558 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 398577016559 tetramer interface [polypeptide binding]; other site 398577016560 active site 398577016561 Mg2+/Mn2+ binding site [ion binding]; other site 398577016562 Propionate catabolism activator; Region: PrpR_N; pfam06506 398577016563 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 398577016564 PAS domain; Region: PAS; smart00091 398577016565 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 398577016566 Walker A motif; other site 398577016567 ATP binding site [chemical binding]; other site 398577016568 Walker B motif; other site 398577016569 arginine finger; other site 398577016570 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 398577016571 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 398577016572 CGNR zinc finger; Region: zf-CGNR; pfam11706 398577016573 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 398577016574 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577016575 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 398577016576 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577016577 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577016578 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398577016579 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577016580 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 398577016581 CoA binding domain; Region: CoA_binding_2; pfam13380 398577016582 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 398577016583 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398577016584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577016585 Coenzyme A binding pocket [chemical binding]; other site 398577016586 H-NS histone family; Region: Histone_HNS; pfam00816 398577016587 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577016588 PAS fold; Region: PAS_4; pfam08448 398577016589 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398577016590 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 398577016591 Walker B motif; other site 398577016592 arginine finger; other site 398577016593 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577016594 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 398577016595 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577016596 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 398577016597 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577016598 putative acetyltransferase YhhY; Provisional; Region: PRK10140 398577016599 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398577016600 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 398577016601 Phosphoesterase family; Region: Phosphoesterase; pfam04185 398577016602 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398577016603 Domain of unknown function (DUF756); Region: DUF756; pfam05506 398577016604 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398577016605 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398577016606 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 398577016607 active site residue [active] 398577016608 outer membrane porin, OprD family; Region: OprD; pfam03573 398577016609 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 398577016610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577016611 Walker A/P-loop; other site 398577016612 ATP binding site [chemical binding]; other site 398577016613 Q-loop/lid; other site 398577016614 ABC transporter signature motif; other site 398577016615 Walker B; other site 398577016616 D-loop; other site 398577016617 H-loop/switch region; other site 398577016618 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398577016619 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 398577016620 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577016621 Walker A/P-loop; other site 398577016622 ATP binding site [chemical binding]; other site 398577016623 Q-loop/lid; other site 398577016624 ABC transporter signature motif; other site 398577016625 Walker B; other site 398577016626 D-loop; other site 398577016627 H-loop/switch region; other site 398577016628 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398577016629 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 398577016630 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 398577016631 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 398577016632 dimer interface [polypeptide binding]; other site 398577016633 conserved gate region; other site 398577016634 putative PBP binding loops; other site 398577016635 ABC-ATPase subunit interface; other site 398577016636 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 398577016637 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 398577016638 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 398577016639 ABC-ATPase subunit interface; other site 398577016640 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 398577016641 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 398577016642 peptide binding site [polypeptide binding]; other site 398577016643 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 398577016644 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 398577016645 non-specific DNA binding site [nucleotide binding]; other site 398577016646 salt bridge; other site 398577016647 sequence-specific DNA binding site [nucleotide binding]; other site 398577016648 Cupin domain; Region: Cupin_2; pfam07883 398577016649 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 398577016650 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016651 putative substrate translocation pore; other site 398577016652 POT family; Region: PTR2; cl17359 398577016653 OpgC protein; Region: OpgC_C; pfam10129 398577016654 Acyltransferase family; Region: Acyl_transf_3; pfam01757 398577016655 Predicted permeases [General function prediction only]; Region: RarD; COG2962 398577016656 acylphosphatase; Provisional; Region: PRK14424 398577016657 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 398577016658 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 398577016659 putative NADP binding site [chemical binding]; other site 398577016660 putative substrate binding site [chemical binding]; other site 398577016661 active site 398577016662 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 398577016663 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 398577016664 active site 398577016665 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 398577016666 LytB protein; Region: LYTB; pfam02401 398577016667 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 398577016668 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 398577016669 FeS/SAM binding site; other site 398577016670 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 398577016671 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 398577016672 SnoaL-like domain; Region: SnoaL_2; pfam12680 398577016673 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 398577016674 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 398577016675 Protein of unknown function (DUF466); Region: DUF466; pfam04328 398577016676 carbon starvation protein A; Provisional; Region: PRK15015 398577016677 Carbon starvation protein CstA; Region: CstA; pfam02554 398577016678 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 398577016679 PRC-barrel domain; Region: PRC; pfam05239 398577016680 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 398577016681 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398577016682 hypothetical protein; Provisional; Region: PRK11239 398577016683 Protein of unknown function, DUF480; Region: DUF480; pfam04337 398577016684 short chain dehydrogenase; Provisional; Region: PRK07023 398577016685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577016686 NAD(P) binding site [chemical binding]; other site 398577016687 active site 398577016688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 398577016689 MOSC domain; Region: MOSC; pfam03473 398577016690 3-alpha domain; Region: 3-alpha; pfam03475 398577016691 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398577016692 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398577016693 inhibitor site; inhibition site 398577016694 active site 398577016695 dimer interface [polypeptide binding]; other site 398577016696 catalytic residue [active] 398577016697 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 398577016698 intersubunit interface [polypeptide binding]; other site 398577016699 active site 398577016700 Zn2+ binding site [ion binding]; other site 398577016701 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577016702 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 398577016703 non-specific DNA binding site [nucleotide binding]; other site 398577016704 salt bridge; other site 398577016705 sequence-specific DNA binding site [nucleotide binding]; other site 398577016706 Cupin domain; Region: Cupin_2; pfam07883 398577016707 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 398577016708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577016709 DNA-binding site [nucleotide binding]; DNA binding site 398577016710 UTRA domain; Region: UTRA; pfam07702 398577016711 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 398577016712 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 398577016713 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 398577016714 substrate binding pocket [chemical binding]; other site 398577016715 membrane-bound complex binding site; other site 398577016716 hinge residues; other site 398577016717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577016718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016719 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 398577016720 dimerization interface [polypeptide binding]; other site 398577016721 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 398577016722 cytosine deaminase; Provisional; Region: PRK05985 398577016723 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 398577016724 active site 398577016725 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 398577016726 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 398577016727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577016728 Coenzyme A binding pocket [chemical binding]; other site 398577016729 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 398577016730 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 398577016731 aminotransferase; Validated; Region: PRK07046 398577016732 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 398577016733 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577016734 catalytic residue [active] 398577016735 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398577016736 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398577016737 metal binding site [ion binding]; metal-binding site 398577016738 putative dimer interface [polypeptide binding]; other site 398577016739 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 398577016740 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 398577016741 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577016742 catalytic residue [active] 398577016743 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577016744 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 398577016745 putative DNA binding site [nucleotide binding]; other site 398577016746 putative Zn2+ binding site [ion binding]; other site 398577016747 AsnC family; Region: AsnC_trans_reg; pfam01037 398577016748 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 398577016749 active site 398577016750 catalytic site [active] 398577016751 substrate binding site [chemical binding]; other site 398577016752 Tannase and feruloyl esterase; Region: Tannase; pfam07519 398577016753 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577016754 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 398577016755 trimer interface [polypeptide binding]; other site 398577016756 eyelet of channel; other site 398577016757 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 398577016758 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016759 putative substrate translocation pore; other site 398577016760 Probable transposase; Region: OrfB_IS605; pfam01385 398577016761 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577016762 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577016763 feruloyl-CoA synthase; Reviewed; Region: PRK08180 398577016764 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 398577016765 acyl-activating enzyme (AAE) consensus motif; other site 398577016766 putative AMP binding site [chemical binding]; other site 398577016767 putative active site [active] 398577016768 putative CoA binding site [chemical binding]; other site 398577016769 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 398577016770 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577016771 NAD(P) binding site [chemical binding]; other site 398577016772 catalytic residues [active] 398577016773 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 398577016774 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 398577016775 substrate binding site [chemical binding]; other site 398577016776 oxyanion hole (OAH) forming residues; other site 398577016777 trimer interface [polypeptide binding]; other site 398577016778 Transcriptional regulators [Transcription]; Region: MarR; COG1846 398577016779 MarR family; Region: MarR_2; pfam12802 398577016780 PAAR motif; Region: PAAR_motif; pfam05488 398577016781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577016782 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577016783 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577016784 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577016785 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577016786 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 398577016787 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577016788 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 398577016789 TM-ABC transporter signature motif; other site 398577016790 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 398577016791 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577016792 Walker A/P-loop; other site 398577016793 ATP binding site [chemical binding]; other site 398577016794 Q-loop/lid; other site 398577016795 ABC transporter signature motif; other site 398577016796 Walker B; other site 398577016797 D-loop; other site 398577016798 H-loop/switch region; other site 398577016799 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577016800 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 398577016801 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 398577016802 ligand binding site [chemical binding]; other site 398577016803 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398577016804 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398577016805 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398577016806 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398577016807 inhibitor site; inhibition site 398577016808 active site 398577016809 dimer interface [polypeptide binding]; other site 398577016810 catalytic residue [active] 398577016811 D-galactonate transporter; Region: 2A0114; TIGR00893 398577016812 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016813 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577016814 dihydroxy-acid dehydratase; Validated; Region: PRK06131 398577016815 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 398577016816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577016817 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 398577016818 putative dimerization interface [polypeptide binding]; other site 398577016819 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 398577016820 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 398577016821 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 398577016822 N-terminal plug; other site 398577016823 ligand-binding site [chemical binding]; other site 398577016824 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577016825 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577016826 DNA binding site [nucleotide binding] 398577016827 domain linker motif; other site 398577016828 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 398577016829 dimerization interface [polypeptide binding]; other site 398577016830 ligand binding site [chemical binding]; other site 398577016831 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 398577016832 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 398577016833 Walker A/P-loop; other site 398577016834 ATP binding site [chemical binding]; other site 398577016835 Q-loop/lid; other site 398577016836 ABC transporter signature motif; other site 398577016837 Walker B; other site 398577016838 D-loop; other site 398577016839 H-loop/switch region; other site 398577016840 TOBE domain; Region: TOBE; pfam03459 398577016841 TOBE domain; Region: TOBE_2; pfam08402 398577016842 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 398577016843 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 398577016844 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 398577016845 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398577016846 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 398577016847 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 398577016848 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 398577016849 dimer interface [polypeptide binding]; other site 398577016850 conserved gate region; other site 398577016851 putative PBP binding loops; other site 398577016852 ABC-ATPase subunit interface; other site 398577016853 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398577016854 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 398577016855 dimer interface [polypeptide binding]; other site 398577016856 conserved gate region; other site 398577016857 putative PBP binding loops; other site 398577016858 ABC-ATPase subunit interface; other site 398577016859 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 398577016860 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577016861 DNA-binding site [nucleotide binding]; DNA binding site 398577016862 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 398577016863 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 398577016864 FAD binding domain; Region: FAD_binding_4; pfam01565 398577016865 FAD binding domain; Region: FAD_binding_4; pfam01565 398577016866 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 398577016867 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 398577016868 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 398577016869 Cysteine-rich domain; Region: CCG; pfam02754 398577016870 Cysteine-rich domain; Region: CCG; pfam02754 398577016871 Domain of unknown function (DUF336); Region: DUF336; cl01249 398577016872 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 398577016873 active site 398577016874 Cache domain; Region: Cache_1; pfam02743 398577016875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577016876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577016877 metal binding site [ion binding]; metal-binding site 398577016878 active site 398577016879 I-site; other site 398577016880 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 398577016881 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 398577016882 Histidine kinase; Region: HisKA_3; pfam07730 398577016883 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 398577016884 ATP binding site [chemical binding]; other site 398577016885 Mg2+ binding site [ion binding]; other site 398577016886 G-X-G motif; other site 398577016887 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577016888 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 398577016889 active site 398577016890 phosphorylation site [posttranslational modification] 398577016891 intermolecular recognition site; other site 398577016892 dimerization interface [polypeptide binding]; other site 398577016893 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 398577016894 DNA binding residues [nucleotide binding] 398577016895 dimerization interface [polypeptide binding]; other site 398577016896 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 398577016897 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 398577016898 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 398577016899 VacJ like lipoprotein; Region: VacJ; cl01073 398577016900 hypothetical protein; Provisional; Region: PRK07077 398577016901 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 398577016902 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 398577016903 Active site cavity [active] 398577016904 catalytic acid [active] 398577016905 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577016906 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 398577016907 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 398577016908 active site lid residues [active] 398577016909 substrate binding pocket [chemical binding]; other site 398577016910 catalytic residues [active] 398577016911 substrate-Mg2+ binding site; other site 398577016912 aspartate-rich region 1; other site 398577016913 aspartate-rich region 2; other site 398577016914 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 398577016915 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577016916 PAS fold; Region: PAS; pfam00989 398577016917 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 398577016918 putative active site [active] 398577016919 heme pocket [chemical binding]; other site 398577016920 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577016921 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577016922 metal binding site [ion binding]; metal-binding site 398577016923 active site 398577016924 I-site; other site 398577016925 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 398577016926 Response regulator receiver domain; Region: Response_reg; pfam00072 398577016927 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 398577016928 active site 398577016929 phosphorylation site [posttranslational modification] 398577016930 intermolecular recognition site; other site 398577016931 dimerization interface [polypeptide binding]; other site 398577016932 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577016933 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 398577016934 dimer interface [polypeptide binding]; other site 398577016935 phosphorylation site [posttranslational modification] 398577016936 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 398577016937 ATP binding site [chemical binding]; other site 398577016938 Mg2+ binding site [ion binding]; other site 398577016939 G-X-G motif; other site 398577016940 Response regulator receiver domain; Region: Response_reg; pfam00072 398577016941 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 398577016942 active site 398577016943 phosphorylation site [posttranslational modification] 398577016944 intermolecular recognition site; other site 398577016945 dimerization interface [polypeptide binding]; other site 398577016946 Predicted flavoprotein [General function prediction only]; Region: COG0431 398577016947 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577016948 RNA polymerase sigma factor; Provisional; Region: PRK12545 398577016949 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577016950 Putative zinc-finger; Region: zf-HC2; pfam13490 398577016951 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 398577016952 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 398577016953 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 398577016954 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 398577016955 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 398577016956 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 398577016957 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 398577016958 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 398577016959 Walker A motif; other site 398577016960 ATP binding site [chemical binding]; other site 398577016961 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 398577016962 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 398577016963 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 398577016964 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 398577016965 Walker A motif; other site 398577016966 hexamer interface [polypeptide binding]; other site 398577016967 ATP binding site [chemical binding]; other site 398577016968 Walker B motif; other site 398577016969 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 398577016970 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 398577016971 metal ion-dependent adhesion site (MIDAS); other site 398577016972 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 398577016973 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398577016974 Walker A motif; other site 398577016975 ATP binding site [chemical binding]; other site 398577016976 Walker B motif; other site 398577016977 arginine finger; other site 398577016978 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 398577016979 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 398577016980 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 398577016981 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 398577016982 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 398577016983 ATP binding site [chemical binding]; other site 398577016984 substrate interface [chemical binding]; other site 398577016985 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 398577016986 PRTRC system protein A; Region: PRTRC_A; TIGR03735 398577016987 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 398577016988 PRTRC system protein B; Region: PRTRC_B; TIGR03737 398577016989 PRTRC system protein F; Region: PRTRC_F; TIGR03742 398577016990 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 398577016991 PRTRC system protein C; Region: PRTRC_C; TIGR03738 398577016992 PRTRC system protein E; Region: PRTRC_E; TIGR03741 398577016993 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 398577016994 ParB-like nuclease domain; Region: ParBc; pfam02195 398577016995 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 398577016996 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 398577016997 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 398577016998 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 398577016999 active site 398577017000 catalytic residues [active] 398577017001 Int/Topo IB signature motif; other site 398577017002 DNA binding site [nucleotide binding] 398577017003 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 398577017004 PRTRC system protein D; Region: PRTRC_D; TIGR03739 398577017005 Mg binding site [ion binding]; other site 398577017006 nucleotide binding site [chemical binding]; other site 398577017007 putative protofilament interface [polypeptide binding]; other site 398577017008 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 398577017009 Toprim domain; Region: Toprim_3; pfam13362 398577017010 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 398577017011 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 398577017012 dimer interface [polypeptide binding]; other site 398577017013 ssDNA binding site [nucleotide binding]; other site 398577017014 tetramer (dimer of dimers) interface [polypeptide binding]; other site 398577017015 Nuclease-related domain; Region: NERD; pfam08378 398577017016 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 398577017017 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 398577017018 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 398577017019 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 398577017020 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 398577017021 Type II/IV secretion system protein; Region: T2SE; pfam00437 398577017022 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 398577017023 Walker A motif; other site 398577017024 ATP binding site [chemical binding]; other site 398577017025 Walker B motif; other site 398577017026 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 398577017027 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398577017028 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 398577017029 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398577017030 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 398577017031 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577017032 catalytic residue [active] 398577017033 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 398577017034 VirB7 interaction site; other site 398577017035 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 398577017036 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577017037 catalytic residue [active] 398577017038 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 398577017039 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 398577017040 VirB7 interaction site; other site 398577017041 VirB8 protein; Region: VirB8; pfam04335 398577017042 threonine dehydratase; Provisional; Region: PRK08198 398577017043 Initiator Replication protein; Region: Rep_3; pfam01051 398577017044 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 398577017045 Helix-turn-helix domain; Region: HTH_17; pfam12728 398577017046 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 398577017047 P-loop; other site 398577017048 Magnesium ion binding site [ion binding]; other site 398577017049 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 398577017050 Magnesium ion binding site [ion binding]; other site 398577017051 ParB-like nuclease domain; Region: ParB; smart00470 398577017052 Phage integrase protein; Region: DUF3701; pfam12482 398577017053 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 398577017054 active site 398577017055 DNA binding site [nucleotide binding] 398577017056 Int/Topo IB signature motif; other site 398577017057 YcfA-like protein; Region: YcfA; pfam07927 398577017058 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 398577017059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 398577017060 Transposase; Region: DEDD_Tnp_IS110; pfam01548 398577017061 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 398577017062 HTH-like domain; Region: HTH_21; pfam13276 398577017063 Integrase core domain; Region: rve; pfam00665 398577017064 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 398577017065 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 398577017066 trimer interface [polypeptide binding]; other site 398577017067 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 398577017068 trimer interface [polypeptide binding]; other site 398577017069 YadA-like C-terminal region; Region: YadA; pfam03895 398577017070 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 398577017071 Helix-turn-helix domain; Region: HTH_38; pfam13936 398577017072 Homeodomain-like domain; Region: HTH_32; pfam13565 398577017073 Integrase core domain; Region: rve; pfam00665 398577017074 putative transposase OrfB; Reviewed; Region: PHA02517 398577017075 HTH-like domain; Region: HTH_21; pfam13276 398577017076 Integrase core domain; Region: rve; pfam00665 398577017077 Integrase core domain; Region: rve_3; pfam13683 398577017078 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 398577017079 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 398577017080 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 398577017081 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 398577017082 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398577017083 MULE transposase domain; Region: MULE; pfam10551 398577017084 Integrase core domain; Region: rve; pfam00665 398577017085 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 398577017086 Bacterial TniB protein; Region: TniB; pfam05621 398577017087 AAA domain; Region: AAA_22; pfam13401 398577017088 TniQ; Region: TniQ; pfam06527 398577017089 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 398577017090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577017091 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 398577017092 DNA-binding site [nucleotide binding]; DNA binding site 398577017093 FCD domain; Region: FCD; pfam07729 398577017094 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398577017095 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 398577017096 substrate binding pocket [chemical binding]; other site 398577017097 membrane-bound complex binding site; other site 398577017098 hinge residues; other site 398577017099 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577017100 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 398577017101 dimer interface [polypeptide binding]; other site 398577017102 conserved gate region; other site 398577017103 putative PBP binding loops; other site 398577017104 ABC-ATPase subunit interface; other site 398577017105 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577017106 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 398577017107 dimer interface [polypeptide binding]; other site 398577017108 conserved gate region; other site 398577017109 putative PBP binding loops; other site 398577017110 ABC-ATPase subunit interface; other site 398577017111 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 398577017112 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577017113 ATP binding site [chemical binding]; other site 398577017114 Walker A/P-loop; other site 398577017115 Q-loop/lid; other site 398577017116 ABC transporter signature motif; other site 398577017117 Walker B; other site 398577017118 D-loop; other site 398577017119 H-loop/switch region; other site 398577017120 aminotransferase; Provisional; Region: PRK06105 398577017121 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 398577017122 inhibitor-cofactor binding pocket; inhibition site 398577017123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577017124 catalytic residue [active] 398577017125 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398577017126 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398577017127 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 398577017128 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 398577017129 multiple promoter invertase; Provisional; Region: mpi; PRK13413 398577017130 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 398577017131 catalytic residues [active] 398577017132 catalytic nucleophile [active] 398577017133 Presynaptic Site I dimer interface [polypeptide binding]; other site 398577017134 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398577017135 Synaptic Flat tetramer interface [polypeptide binding]; other site 398577017136 Synaptic Site I dimer interface [polypeptide binding]; other site 398577017137 DNA binding site [nucleotide binding] 398577017138 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 398577017139 DNA-binding interface [nucleotide binding]; DNA binding site 398577017140 multiple promoter invertase; Provisional; Region: mpi; PRK13413 398577017141 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 398577017142 catalytic residues [active] 398577017143 catalytic nucleophile [active] 398577017144 Presynaptic Site I dimer interface [polypeptide binding]; other site 398577017145 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398577017146 Synaptic Flat tetramer interface [polypeptide binding]; other site 398577017147 Synaptic Site I dimer interface [polypeptide binding]; other site 398577017148 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 398577017149 DNA-binding interface [nucleotide binding]; DNA binding site 398577017150 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398577017151 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577017152 ligand binding site [chemical binding]; other site 398577017153 H-NS histone family; Region: Histone_HNS; pfam00816 398577017154 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577017155 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 398577017156 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 398577017157 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 398577017158 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 398577017159 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398577017160 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 398577017161 binding surface 398577017162 TPR motif; other site 398577017163 TPR repeat; Region: TPR_11; pfam13414 398577017164 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 398577017165 binding surface 398577017166 Tetratricopeptide repeat; Region: TPR_16; pfam13432 398577017167 TPR motif; other site 398577017168 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398577017169 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 398577017170 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 398577017171 TPR motif; other site 398577017172 binding surface 398577017173 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 398577017174 binding surface 398577017175 TPR motif; other site 398577017176 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 398577017177 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 398577017178 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577017179 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 398577017180 non-specific DNA binding site [nucleotide binding]; other site 398577017181 salt bridge; other site 398577017182 sequence-specific DNA binding site [nucleotide binding]; other site 398577017183 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 398577017184 multiple promoter invertase; Provisional; Region: mpi; PRK13413 398577017185 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 398577017186 catalytic residues [active] 398577017187 catalytic nucleophile [active] 398577017188 Presynaptic Site I dimer interface [polypeptide binding]; other site 398577017189 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 398577017190 Synaptic Flat tetramer interface [polypeptide binding]; other site 398577017191 Synaptic Site I dimer interface [polypeptide binding]; other site 398577017192 DNA binding site [nucleotide binding] 398577017193 HTH domain; Region: HTH_22; pfam13309 398577017194 Integrase core domain; Region: rve; pfam00665 398577017195 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577017196 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 398577017197 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398577017198 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398577017199 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398577017200 PapC N-terminal domain; Region: PapC_N; pfam13954 398577017201 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398577017202 PapC C-terminal domain; Region: PapC_C; pfam13953 398577017203 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 398577017204 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 398577017205 active site 398577017206 NTP binding site [chemical binding]; other site 398577017207 nucleic acid binding site [nucleotide binding]; other site 398577017208 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577017209 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 398577017210 Helix-turn-helix domain; Region: HTH_38; pfam13936 398577017211 Integrase core domain; Region: rve; pfam00665 398577017212 putative fimbrial protein TcfA; Provisional; Region: PRK15308 398577017213 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; pfam04449 398577017214 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 398577017215 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398577017216 CblD like pilus biogenesis initiator; Region: CblD; cl06460 398577017217 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577017218 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 398577017219 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577017220 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 398577017221 active site 398577017222 phosphorylation site [posttranslational modification] 398577017223 intermolecular recognition site; other site 398577017224 dimerization interface [polypeptide binding]; other site 398577017225 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 398577017226 DNA binding residues [nucleotide binding] 398577017227 dimerization interface [polypeptide binding]; other site 398577017228 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577017229 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 398577017230 substrate binding pocket [chemical binding]; other site 398577017231 membrane-bound complex binding site; other site 398577017232 hinge residues; other site 398577017233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577017234 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 398577017235 dimer interface [polypeptide binding]; other site 398577017236 phosphorylation site [posttranslational modification] 398577017237 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 398577017238 ATP binding site [chemical binding]; other site 398577017239 Mg2+ binding site [ion binding]; other site 398577017240 G-X-G motif; other site 398577017241 Response regulator receiver domain; Region: Response_reg; pfam00072 398577017242 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 398577017243 active site 398577017244 phosphorylation site [posttranslational modification] 398577017245 intermolecular recognition site; other site 398577017246 dimerization interface [polypeptide binding]; other site 398577017247 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577017248 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 398577017249 substrate binding pocket [chemical binding]; other site 398577017250 membrane-bound complex binding site; other site 398577017251 hinge residues; other site 398577017252 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 398577017253 dimer interface [polypeptide binding]; other site 398577017254 phosphorylation site [posttranslational modification] 398577017255 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 398577017256 ATP binding site [chemical binding]; other site 398577017257 Mg2+ binding site [ion binding]; other site 398577017258 G-X-G motif; other site 398577017259 Response regulator receiver domain; Region: Response_reg; pfam00072 398577017260 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 398577017261 active site 398577017262 phosphorylation site [posttranslational modification] 398577017263 intermolecular recognition site; other site 398577017264 dimerization interface [polypeptide binding]; other site 398577017265 transcriptional regulator FimZ; Provisional; Region: PRK09935 398577017266 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 398577017267 active site 398577017268 phosphorylation site [posttranslational modification] 398577017269 intermolecular recognition site; other site 398577017270 dimerization interface [polypeptide binding]; other site 398577017271 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 398577017272 DNA binding residues [nucleotide binding] 398577017273 dimerization interface [polypeptide binding]; other site 398577017274 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 398577017275 DNA-binding interface [nucleotide binding]; DNA binding site 398577017276 transcriptional regulator RcsB; Provisional; Region: PRK10840 398577017277 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 398577017278 active site 398577017279 phosphorylation site [posttranslational modification] 398577017280 intermolecular recognition site; other site 398577017281 dimerization interface [polypeptide binding]; other site 398577017282 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 398577017283 DNA binding residues [nucleotide binding] 398577017284 dimerization interface [polypeptide binding]; other site 398577017285 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577017286 putative chaperone protein EcpD; Provisional; Region: PRK09926 398577017287 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 398577017288 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 398577017289 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 398577017290 PapC N-terminal domain; Region: PapC_N; pfam13954 398577017291 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 398577017292 PapC C-terminal domain; Region: PapC_C; pfam13953 398577017293 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 398577017294 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 398577017295 putative outer membrane lipoprotein; Provisional; Region: PRK10510 398577017296 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577017297 ligand binding site [chemical binding]; other site 398577017298 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 398577017299 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 398577017300 Protein of unknown function (DUF877); Region: DUF877; pfam05943 398577017301 Protein of unknown function (DUF796); Region: DUF796; pfam05638 398577017302 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 398577017303 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 398577017304 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 398577017305 hypothetical protein; Provisional; Region: PRK08126 398577017306 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 398577017307 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577017308 ligand binding site [chemical binding]; other site 398577017309 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 398577017310 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 398577017311 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 398577017312 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 398577017313 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 398577017314 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577017315 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577017316 PAAR motif; Region: PAAR_motif; pfam05488 398577017317 RHS Repeat; Region: RHS_repeat; cl11982 398577017318 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 398577017319 RHS Repeat; Region: RHS_repeat; cl11982 398577017320 RHS Repeat; Region: RHS_repeat; pfam05593 398577017321 RHS protein; Region: RHS; pfam03527 398577017322 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 398577017323 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 398577017324 putative major fimbrial protein SthE; Provisional; Region: PRK15292 398577017325 Fimbrial protein; Region: Fimbrial; pfam00419 398577017326 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 398577017327 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 398577017328 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 398577017329 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398577017330 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 398577017331 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 398577017332 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 398577017333 ImpE protein; Region: ImpE; pfam07024 398577017334 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 398577017335 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 398577017336 Walker A motif; other site 398577017337 ATP binding site [chemical binding]; other site 398577017338 Walker B motif; other site 398577017339 arginine finger; other site 398577017340 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 398577017341 Walker A motif; other site 398577017342 ATP binding site [chemical binding]; other site 398577017343 Walker B motif; other site 398577017344 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 398577017345 H-NS histone family; Region: Histone_HNS; pfam00816 398577017346 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577017347 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 398577017348 RNase II stability modulator; Provisional; Region: PRK10060 398577017349 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577017350 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398577017351 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 398577017352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577017353 DNA-binding site [nucleotide binding]; DNA binding site 398577017354 FCD domain; Region: FCD; pfam07729 398577017355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577017356 Coenzyme A binding pocket [chemical binding]; other site 398577017357 HNH endonuclease; Region: HNH_2; pfam13391 398577017358 Uncharacterized conserved protein [Function unknown]; Region: COG5439 398577017359 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 398577017360 Abortive infection C-terminus; Region: Abi_C; pfam14355 398577017361 PemK-like protein; Region: PemK; pfam02452 398577017362 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 398577017363 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 398577017364 active site 398577017365 catalytic residues [active] 398577017366 DNA binding site [nucleotide binding] 398577017367 Int/Topo IB signature motif; other site 398577017368 H-NS histone family; Region: Histone_HNS; pfam00816 398577017369 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577017370 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 398577017371 Domain of unknown function (DUF955); Region: DUF955; pfam06114 398577017372 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577017373 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 398577017374 non-specific DNA binding site [nucleotide binding]; other site 398577017375 salt bridge; other site 398577017376 sequence-specific DNA binding site [nucleotide binding]; other site 398577017377 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 398577017378 active site 398577017379 NTP binding site [chemical binding]; other site 398577017380 metal binding triad [ion binding]; metal-binding site 398577017381 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 398577017382 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398577017383 Walker A motif; other site 398577017384 ATP binding site [chemical binding]; other site 398577017385 Walker B motif; other site 398577017386 arginine finger; other site 398577017387 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 398577017388 DNA binding site [nucleotide binding] 398577017389 active site 398577017390 Int/Topo IB signature motif; other site 398577017391 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 398577017392 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 398577017393 active site 398577017394 DNA binding site [nucleotide binding] 398577017395 Int/Topo IB signature motif; other site 398577017396 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 398577017397 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 398577017398 RES domain; Region: RES; pfam08808 398577017399 SurA N-terminal domain; Region: SurA_N_3; cl07813 398577017400 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 398577017401 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 398577017402 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 398577017403 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 398577017404 haemagglutination activity domain; Region: Haemagg_act; pfam05860 398577017405 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 398577017406 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 398577017407 haemagglutination activity domain; Region: Haemagg_act; pfam05860 398577017408 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 398577017409 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 398577017410 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 398577017411 Uncharacterized conserved protein [Function unknown]; Region: COG4544 398577017412 DNA Polymerase Y-family; Region: PolY_like; cd03468 398577017413 DNA binding site [nucleotide binding] 398577017414 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 398577017415 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 398577017416 putative active site [active] 398577017417 putative PHP Thumb interface [polypeptide binding]; other site 398577017418 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 398577017419 generic binding surface II; other site 398577017420 generic binding surface I; other site 398577017421 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 398577017422 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 398577017423 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577017424 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 398577017425 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577017426 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 398577017427 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 398577017428 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398577017429 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577017430 Walker A/P-loop; other site 398577017431 ATP binding site [chemical binding]; other site 398577017432 Q-loop/lid; other site 398577017433 ABC transporter signature motif; other site 398577017434 Walker B; other site 398577017435 D-loop; other site 398577017436 H-loop/switch region; other site 398577017437 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577017438 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577017439 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577017440 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577017441 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577017442 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577017443 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577017444 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577017445 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 398577017446 H-NS histone family; Region: Histone_HNS; pfam00816 398577017447 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577017448 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 398577017449 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 398577017450 active site 398577017451 Int/Topo IB signature motif; other site 398577017452 catalytic residues [active] 398577017453 DNA binding site [nucleotide binding] 398577017454 hypothetical protein; Provisional; Region: PRK06850 398577017455 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 398577017456 Ligand Binding Site [chemical binding]; other site 398577017457 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 398577017458 PLD-like domain; Region: PLDc_2; pfam13091 398577017459 putative active site [active] 398577017460 catalytic site [active] 398577017461 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577017462 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577017463 Walker A/P-loop; other site 398577017464 Walker A/P-loop; other site 398577017465 ATP binding site [chemical binding]; other site 398577017466 ATP binding site [chemical binding]; other site 398577017467 Q-loop/lid; other site 398577017468 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 398577017469 active site 398577017470 metal binding site [ion binding]; metal-binding site 398577017471 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 398577017472 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 398577017473 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 398577017474 Family description; Region: UvrD_C_2; pfam13538 398577017475 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 398577017476 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 398577017477 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577017478 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 398577017479 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 398577017480 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 398577017481 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 398577017482 catalytic loop [active] 398577017483 iron binding site [ion binding]; other site 398577017484 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577017485 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398577017486 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577017487 benzoate transport; Region: 2A0115; TIGR00895 398577017488 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577017489 putative substrate translocation pore; other site 398577017490 pyruvate carboxylase; Reviewed; Region: PRK12999 398577017491 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 398577017492 ATP-grasp domain; Region: ATP-grasp_4; cl17255 398577017493 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 398577017494 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 398577017495 active site 398577017496 catalytic residues [active] 398577017497 metal binding site [ion binding]; metal-binding site 398577017498 homodimer binding site [polypeptide binding]; other site 398577017499 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 398577017500 carboxyltransferase (CT) interaction site; other site 398577017501 biotinylation site [posttranslational modification]; other site 398577017502 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 398577017503 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398577017504 acyl-activating enzyme (AAE) consensus motif; other site 398577017505 AMP binding site [chemical binding]; other site 398577017506 active site 398577017507 CoA binding site [chemical binding]; other site 398577017508 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 398577017509 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 398577017510 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 398577017511 active site 398577017512 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 398577017513 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 398577017514 dimer interface [polypeptide binding]; other site 398577017515 active site 398577017516 CoA binding pocket [chemical binding]; other site 398577017517 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398577017518 acyl-CoA synthetase; Validated; Region: PRK05850 398577017519 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 398577017520 acyl-activating enzyme (AAE) consensus motif; other site 398577017521 active site 398577017522 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577017523 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 398577017524 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 398577017525 active site 398577017526 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 398577017527 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 398577017528 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 398577017529 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 398577017530 beta-ketothiolase; Provisional; Region: PRK09051 398577017531 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 398577017532 dimer interface [polypeptide binding]; other site 398577017533 active site 398577017534 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 398577017535 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577017536 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 398577017537 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 398577017538 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 398577017539 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 398577017540 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577017541 active site 398577017542 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 398577017543 LysR family transcriptional regulator; Provisional; Region: PRK14997 398577017544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577017545 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 398577017546 putative effector binding pocket; other site 398577017547 dimerization interface [polypeptide binding]; other site 398577017548 short chain dehydrogenase; Provisional; Region: PRK06500 398577017549 classical (c) SDRs; Region: SDR_c; cd05233 398577017550 NAD(P) binding site [chemical binding]; other site 398577017551 active site 398577017552 Pirin-related protein [General function prediction only]; Region: COG1741 398577017553 Pirin; Region: Pirin; pfam02678 398577017554 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 398577017555 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 398577017556 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 398577017557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577017558 NAD(P) binding site [chemical binding]; other site 398577017559 active site 398577017560 classical (c) SDRs; Region: SDR_c; cd05233 398577017561 NAD(P) binding site [chemical binding]; other site 398577017562 active site 398577017563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577017564 transcriptional regulator, ArgP family; Region: argP; TIGR03298 398577017565 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398577017566 dimerization interface [polypeptide binding]; other site 398577017567 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 398577017568 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 398577017569 ligand binding site [chemical binding]; other site 398577017570 homodimer interface [polypeptide binding]; other site 398577017571 NAD(P) binding site [chemical binding]; other site 398577017572 trimer interface B [polypeptide binding]; other site 398577017573 trimer interface A [polypeptide binding]; other site 398577017574 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 398577017575 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 398577017576 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 398577017577 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 398577017578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577017579 NAD(P) binding site [chemical binding]; other site 398577017580 active site 398577017581 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577017582 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577017583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577017584 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 398577017585 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 398577017586 acyl-activating enzyme (AAE) consensus motif; other site 398577017587 putative AMP binding site [chemical binding]; other site 398577017588 putative active site [active] 398577017589 putative CoA binding site [chemical binding]; other site 398577017590 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577017591 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577017592 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577017593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577017594 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 398577017595 dimer interface [polypeptide binding]; other site 398577017596 phosphorylation site [posttranslational modification] 398577017597 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 398577017598 ATP binding site [chemical binding]; other site 398577017599 Mg2+ binding site [ion binding]; other site 398577017600 G-X-G motif; other site 398577017601 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577017602 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 398577017603 active site 398577017604 phosphorylation site [posttranslational modification] 398577017605 intermolecular recognition site; other site 398577017606 dimerization interface [polypeptide binding]; other site 398577017607 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 398577017608 DNA binding site [nucleotide binding] 398577017609 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 398577017610 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 398577017611 FeS/SAM binding site; other site 398577017612 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 398577017613 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 398577017614 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 398577017615 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 398577017616 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 398577017617 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 398577017618 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 398577017619 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 398577017620 Walker A motif; other site 398577017621 ATP binding site [chemical binding]; other site 398577017622 Walker B motif; other site 398577017623 arginine finger; other site 398577017624 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577017625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577017626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577017627 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 398577017628 putative effector binding pocket; other site 398577017629 dimerization interface [polypeptide binding]; other site 398577017630 NADH(P)-binding; Region: NAD_binding_10; pfam13460 398577017631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577017632 NAD(P) binding site [chemical binding]; other site 398577017633 active site 398577017634 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 398577017635 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577017636 DNA-binding site [nucleotide binding]; DNA binding site 398577017637 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 398577017638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577017639 homodimer interface [polypeptide binding]; other site 398577017640 catalytic residue [active] 398577017641 OsmC-like protein; Region: OsmC; cl00767 398577017642 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 398577017643 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577017644 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 398577017645 acetoacetate decarboxylase; Provisional; Region: PRK02265 398577017646 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 398577017647 classical (c) SDRs; Region: SDR_c; cd05233 398577017648 NAD(P) binding site [chemical binding]; other site 398577017649 active site 398577017650 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398577017651 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398577017652 active site 398577017653 nucleophile elbow; other site 398577017654 Patatin phospholipase; Region: DUF3734; pfam12536 398577017655 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 398577017656 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398577017657 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 398577017658 active site residue [active] 398577017659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577017660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577017661 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 398577017662 dimerization interface [polypeptide binding]; other site 398577017663 Predicted membrane protein [Function unknown]; Region: COG1288 398577017664 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 398577017665 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398577017666 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398577017667 metal binding site [ion binding]; metal-binding site 398577017668 putative dimer interface [polypeptide binding]; other site 398577017669 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577017670 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577017671 putative substrate translocation pore; other site 398577017672 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 398577017673 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577017674 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 398577017675 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 398577017676 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577017677 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 398577017678 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398577017679 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398577017680 Cupin domain; Region: Cupin_2; pfam07883 398577017681 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 398577017682 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 398577017683 DNA-binding site [nucleotide binding]; DNA binding site 398577017684 RNA-binding motif; other site 398577017685 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 398577017686 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 398577017687 Predicted membrane protein [Function unknown]; Region: COG2259 398577017688 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 398577017689 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 398577017690 active site 398577017691 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 398577017692 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 398577017693 Isochorismatase family; Region: Isochorismatase; pfam00857 398577017694 catalytic triad [active] 398577017695 dimer interface [polypeptide binding]; other site 398577017696 conserved cis-peptide bond; other site 398577017697 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 398577017698 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 398577017699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577017700 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 398577017701 dimerization interface [polypeptide binding]; other site 398577017702 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577017703 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 398577017704 DNA binding site [nucleotide binding] 398577017705 Predicted ATPase [General function prediction only]; Region: COG3903 398577017706 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577017707 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577017708 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398577017709 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577017710 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577017711 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577017712 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577017713 Cytochrome c; Region: Cytochrom_C; pfam00034 398577017714 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577017715 Cytochrome c; Region: Cytochrom_C; pfam00034 398577017716 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398577017717 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 398577017718 catalytic loop [active] 398577017719 iron binding site [ion binding]; other site 398577017720 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577017721 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398577017722 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577017723 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 398577017724 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577017725 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577017726 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577017727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577017728 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 398577017729 putative effector binding pocket; other site 398577017730 putative dimerization interface [polypeptide binding]; other site 398577017731 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 398577017732 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577017733 putative substrate translocation pore; other site 398577017734 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 398577017735 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 398577017736 FMN binding site [chemical binding]; other site 398577017737 active site 398577017738 substrate binding site [chemical binding]; other site 398577017739 catalytic residue [active] 398577017740 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 398577017741 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 398577017742 active site 398577017743 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 398577017744 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577017745 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 398577017746 DNA binding site [nucleotide binding] 398577017747 AAA ATPase domain; Region: AAA_16; pfam13191 398577017748 Predicted ATPase [General function prediction only]; Region: COG3903 398577017749 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 398577017750 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577017751 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577017752 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398577017753 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577017754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577017755 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 398577017756 putative effector binding pocket; other site 398577017757 dimerization interface [polypeptide binding]; other site 398577017758 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 398577017759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 398577017760 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 398577017761 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 398577017762 active site 398577017763 nucleophile elbow; other site 398577017764 Double zinc ribbon; Region: DZR; pfam12773 398577017765 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 398577017766 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 398577017767 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 398577017768 cyclase homology domain; Region: CHD; cd07302 398577017769 nucleotidyl binding site; other site 398577017770 metal binding site [ion binding]; metal-binding site 398577017771 dimer interface [polypeptide binding]; other site 398577017772 AAA ATPase domain; Region: AAA_16; pfam13191 398577017773 Predicted ATPase [General function prediction only]; Region: COG3903 398577017774 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 398577017775 binding surface 398577017776 TPR motif; other site 398577017777 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 398577017778 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577017779 DNA-binding site [nucleotide binding]; DNA binding site 398577017780 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 398577017781 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 398577017782 active sites [active] 398577017783 tetramer interface [polypeptide binding]; other site 398577017784 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 398577017785 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577017786 Walker A/P-loop; other site 398577017787 ATP binding site [chemical binding]; other site 398577017788 Q-loop/lid; other site 398577017789 ABC transporter signature motif; other site 398577017790 Walker B; other site 398577017791 D-loop; other site 398577017792 H-loop/switch region; other site 398577017793 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 398577017794 dimer interface [polypeptide binding]; other site 398577017795 conserved gate region; other site 398577017796 putative PBP binding loops; other site 398577017797 ABC-ATPase subunit interface; other site 398577017798 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 398577017799 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 398577017800 dimer interface [polypeptide binding]; other site 398577017801 conserved gate region; other site 398577017802 putative PBP binding loops; other site 398577017803 ABC-ATPase subunit interface; other site 398577017804 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398577017805 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 398577017806 substrate binding pocket [chemical binding]; other site 398577017807 membrane-bound complex binding site; other site 398577017808 hinge residues; other site 398577017809 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 398577017810 pseudoazurin; Region: pseudoazurin; TIGR02375 398577017811 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 398577017812 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 398577017813 heme binding site [chemical binding]; other site 398577017814 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 398577017815 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398577017816 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398577017817 metal binding site [ion binding]; metal-binding site 398577017818 putative dimer interface [polypeptide binding]; other site 398577017819 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 398577017820 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577017821 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 398577017822 NAD(P) binding site [chemical binding]; other site 398577017823 catalytic residues [active] 398577017824 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 398577017825 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 398577017826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577017827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577017828 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 398577017829 dimerization interface [polypeptide binding]; other site 398577017830 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 398577017831 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 398577017832 Bacterial type III secretion protein (HrpB7); Region: HrpB7; pfam09486 398577017833 type III secretion system ATPase; Provisional; Region: PRK09099 398577017834 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 398577017835 Walker A motif/ATP binding site; other site 398577017836 Walker B motif; other site 398577017837 type III secretion system protein HrpB; Validated; Region: PRK09098 398577017838 Flagellar assembly protein FliH; Region: FliH; pfam02108 398577017839 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 398577017840 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 398577017841 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 398577017842 Bacterial type III secretion protein (HrpB2); Region: HrpB2; pfam09487 398577017843 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 398577017844 type III secretion system protein HrcU; Validated; Region: PRK09108 398577017845 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 398577017846 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 398577017847 FHIPEP family; Region: FHIPEP; pfam00771 398577017848 Type III secretion protein (HpaP); Region: HpaP; pfam09483 398577017849 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 398577017850 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 398577017851 type III secretion system protein YscR; Provisional; Region: PRK12797 398577017852 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 398577017853 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 398577017854 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 398577017855 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 398577017856 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 398577017857 active site 398577017858 phosphorylation site [posttranslational modification] 398577017859 intermolecular recognition site; other site 398577017860 dimerization interface [polypeptide binding]; other site 398577017861 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 398577017862 DNA binding site [nucleotide binding] 398577017863 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398577017864 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 398577017865 ATP binding site [chemical binding]; other site 398577017866 Mg2+ binding site [ion binding]; other site 398577017867 G-X-G motif; other site 398577017868 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398577017869 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 398577017870 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 398577017871 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398577017872 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 398577017873 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 398577017874 Walker A motif; other site 398577017875 ATP binding site [chemical binding]; other site 398577017876 Walker B motif; other site 398577017877 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 398577017878 PilS N terminal; Region: PilS; pfam08805 398577017879 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577017880 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577017881 Type II/IV secretion system protein; Region: T2SE; pfam00437 398577017882 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 398577017883 Walker A motif; other site 398577017884 ATP binding site [chemical binding]; other site 398577017885 Walker B motif; other site 398577017886 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 398577017887 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 398577017888 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398577017889 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 398577017890 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577017891 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577017892 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 398577017893 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 398577017894 N-acetyl-D-glucosamine binding site [chemical binding]; other site 398577017895 catalytic residue [active] 398577017896 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 398577017897 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 398577017898 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 398577017899 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 398577017900 active site 398577017901 substrate binding site [chemical binding]; other site 398577017902 cosubstrate binding site; other site 398577017903 catalytic site [active] 398577017904 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 398577017905 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 398577017906 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 398577017907 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 398577017908 FMN-binding pocket [chemical binding]; other site 398577017909 flavin binding motif; other site 398577017910 phosphate binding motif [ion binding]; other site 398577017911 beta-alpha-beta structure motif; other site 398577017912 NAD binding pocket [chemical binding]; other site 398577017913 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 398577017914 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 398577017915 catalytic loop [active] 398577017916 iron binding site [ion binding]; other site 398577017917 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 398577017918 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 398577017919 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 398577017920 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398577017921 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 398577017922 alpha subunit interface [polypeptide binding]; other site 398577017923 active site 398577017924 substrate binding site [chemical binding]; other site 398577017925 Fe binding site [ion binding]; other site 398577017926 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 398577017927 allantoate amidohydrolase; Reviewed; Region: PRK12892 398577017928 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398577017929 active site 398577017930 metal binding site [ion binding]; metal-binding site 398577017931 dimer interface [polypeptide binding]; other site 398577017932 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 398577017933 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 398577017934 heterodimer interface [polypeptide binding]; other site 398577017935 active site 398577017936 FMN binding site [chemical binding]; other site 398577017937 homodimer interface [polypeptide binding]; other site 398577017938 substrate binding site [chemical binding]; other site 398577017939 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 398577017940 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 398577017941 FAD binding pocket [chemical binding]; other site 398577017942 FAD binding motif [chemical binding]; other site 398577017943 phosphate binding motif [ion binding]; other site 398577017944 beta-alpha-beta structure motif; other site 398577017945 NAD binding pocket [chemical binding]; other site 398577017946 Iron coordination center [ion binding]; other site 398577017947 benzoate transport; Region: 2A0115; TIGR00895 398577017948 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577017949 putative substrate translocation pore; other site 398577017950 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577017951 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 398577017952 trimer interface [polypeptide binding]; other site 398577017953 eyelet of channel; other site 398577017954 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 398577017955 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 398577017956 non-specific DNA binding site [nucleotide binding]; other site 398577017957 salt bridge; other site 398577017958 sequence-specific DNA binding site [nucleotide binding]; other site 398577017959 Thioesterase domain; Region: Thioesterase; pfam00975 398577017960 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 398577017961 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 398577017962 dimer interface [polypeptide binding]; other site 398577017963 PYR/PP interface [polypeptide binding]; other site 398577017964 TPP binding site [chemical binding]; other site 398577017965 substrate binding site [chemical binding]; other site 398577017966 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 398577017967 TPP-binding site [chemical binding]; other site 398577017968 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 398577017969 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577017970 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577017971 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577017972 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577017973 putative substrate translocation pore; other site 398577017974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577017975 SnoaL-like domain; Region: SnoaL_2; pfam12680 398577017976 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 398577017977 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 398577017978 dimer interface [polypeptide binding]; other site 398577017979 active site 398577017980 CoA binding pocket [chemical binding]; other site 398577017981 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 398577017982 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 398577017983 dimer interface [polypeptide binding]; other site 398577017984 active site 398577017985 CoA binding pocket [chemical binding]; other site 398577017986 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 398577017987 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 398577017988 A-factor biosynthesis hotdog domain; Region: AfsA; pfam03756 398577017989 hypothetical protein; Provisional; Region: PRK06184 398577017990 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577017991 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 398577017992 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 398577017993 Autoinducer binding domain; Region: Autoind_bind; pfam03472 398577017994 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 398577017995 DNA binding residues [nucleotide binding] 398577017996 dimerization interface [polypeptide binding]; other site 398577017997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577017998 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 398577017999 active site clefts [active] 398577018000 zinc binding site [ion binding]; other site 398577018001 dimer interface [polypeptide binding]; other site 398577018002 cyanate hydratase; Validated; Region: PRK02866 398577018003 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 398577018004 oligomer interface [polypeptide binding]; other site 398577018005 active site 398577018006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 398577018007 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577018008 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 398577018009 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018010 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 398577018011 dimerization interface [polypeptide binding]; other site 398577018012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 398577018013 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577018014 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577018015 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 398577018016 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577018017 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 398577018018 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577018019 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577018020 methionine sulfoxide reductase B; Provisional; Region: PRK00222 398577018021 SelR domain; Region: SelR; pfam01641 398577018022 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 398577018023 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 398577018024 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 398577018025 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 398577018026 catalytic residues [active] 398577018027 methionine sulfoxide reductase A; Provisional; Region: PRK13014 398577018028 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 398577018029 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 398577018030 [2Fe-2S] cluster binding site [ion binding]; other site 398577018031 phenylhydantoinase; Validated; Region: PRK08323 398577018032 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 398577018033 tetramer interface [polypeptide binding]; other site 398577018034 active site 398577018035 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 398577018036 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398577018037 Na binding site [ion binding]; other site 398577018038 putative substrate binding site [chemical binding]; other site 398577018039 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 398577018040 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 398577018041 homodimer interface [polypeptide binding]; other site 398577018042 active site 398577018043 FMN binding site [chemical binding]; other site 398577018044 substrate binding site [chemical binding]; other site 398577018045 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 398577018046 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 398577018047 allantoate amidohydrolase; Reviewed; Region: PRK09290 398577018048 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 398577018049 active site 398577018050 metal binding site [ion binding]; metal-binding site 398577018051 dimer interface [polypeptide binding]; other site 398577018052 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 398577018053 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577018054 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 398577018055 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 398577018056 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 398577018057 dimer interface [polypeptide binding]; other site 398577018058 active site 398577018059 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 398577018060 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 398577018061 NAD binding site [chemical binding]; other site 398577018062 homodimer interface [polypeptide binding]; other site 398577018063 homotetramer interface [polypeptide binding]; other site 398577018064 active site 398577018065 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 398577018066 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 398577018067 active site 398577018068 acyl-activating enzyme (AAE) consensus motif; other site 398577018069 putative CoA binding site [chemical binding]; other site 398577018070 AMP binding site [chemical binding]; other site 398577018071 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577018072 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577018073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577018074 Protein of unknown function (DUF429); Region: DUF429; pfam04250 398577018075 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 398577018076 HD domain; Region: HD_4; pfam13328 398577018077 P-loop containing region of AAA domain; Region: AAA_29; cl17516 398577018078 AAA domain; Region: AAA_23; pfam13476 398577018079 AAA domain; Region: AAA_27; pfam13514 398577018080 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 398577018081 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 398577018082 active site 398577018083 metal binding site [ion binding]; metal-binding site 398577018084 DNA binding site [nucleotide binding] 398577018085 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 398577018086 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 398577018087 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577018088 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398577018089 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577018090 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577018091 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577018092 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 398577018093 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 398577018094 dimer interface [polypeptide binding]; other site 398577018095 phosphorylation site [posttranslational modification] 398577018096 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 398577018097 ATP binding site [chemical binding]; other site 398577018098 Mg2+ binding site [ion binding]; other site 398577018099 G-X-G motif; other site 398577018100 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 398577018101 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 398577018102 active site 398577018103 phosphorylation site [posttranslational modification] 398577018104 intermolecular recognition site; other site 398577018105 dimerization interface [polypeptide binding]; other site 398577018106 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 398577018107 DNA binding site [nucleotide binding] 398577018108 RES domain; Region: RES; pfam08808 398577018109 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 398577018110 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 398577018111 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398577018112 Zn2+ binding site [ion binding]; other site 398577018113 Mg2+ binding site [ion binding]; other site 398577018114 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577018115 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398577018116 conserved cys residue [active] 398577018117 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577018118 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577018119 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577018120 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 398577018121 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398577018122 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 398577018123 substrate binding pocket [chemical binding]; other site 398577018124 membrane-bound complex binding site; other site 398577018125 hinge residues; other site 398577018126 transcriptional regulator; Provisional; Region: PRK10632 398577018127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018128 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 398577018129 putative effector binding pocket; other site 398577018130 dimerization interface [polypeptide binding]; other site 398577018131 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 398577018132 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 398577018133 GDP-binding site [chemical binding]; other site 398577018134 ACT binding site; other site 398577018135 IMP binding site; other site 398577018136 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577018137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018138 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 398577018139 dimerization interface [polypeptide binding]; other site 398577018140 substrate binding pocket [chemical binding]; other site 398577018141 Initiator Replication protein; Region: Rep_3; pfam01051 398577018142 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 398577018143 ParB-like nuclease domain; Region: ParB; smart00470 398577018144 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398577018145 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 398577018146 P-loop; other site 398577018147 Magnesium ion binding site [ion binding]; other site 398577018148 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 398577018149 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 398577018150 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577018151 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577018152 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 398577018153 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 398577018154 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577018155 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 398577018156 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 398577018157 ProQ/FINO family; Region: ProQ; pfam04352 398577018158 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 398577018159 EamA-like transporter family; Region: EamA; pfam00892 398577018160 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 398577018161 dimer interface [polypeptide binding]; other site 398577018162 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577018163 ligand binding site [chemical binding]; other site 398577018164 TOBE domain; Region: TOBE; cl01440 398577018165 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 398577018166 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577018167 Transcriptional regulator; Region: Rrf2; cl17282 398577018168 multidrug resistance protein MdtN; Provisional; Region: PRK10476 398577018169 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577018170 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577018171 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 398577018172 Fusaric acid resistance protein family; Region: FUSC; pfam04632 398577018173 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 398577018174 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 398577018175 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 398577018176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577018177 DNA-binding site [nucleotide binding]; DNA binding site 398577018178 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 398577018179 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 398577018180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577018181 homodimer interface [polypeptide binding]; other site 398577018182 catalytic residue [active] 398577018183 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 398577018184 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 398577018185 tetramer interface [polypeptide binding]; other site 398577018186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577018187 catalytic residue [active] 398577018188 ectoine utilization protein EutC; Validated; Region: PRK08291 398577018189 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 398577018190 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 398577018191 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 398577018192 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 398577018193 active site 398577018194 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 398577018195 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 398577018196 putative active site [active] 398577018197 Zn binding site [ion binding]; other site 398577018198 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577018199 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 398577018200 putative DNA binding site [nucleotide binding]; other site 398577018201 putative Zn2+ binding site [ion binding]; other site 398577018202 AsnC family; Region: AsnC_trans_reg; pfam01037 398577018203 succinic semialdehyde dehydrogenase; Region: PLN02278 398577018204 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398577018205 tetramerization interface [polypeptide binding]; other site 398577018206 NAD(P) binding site [chemical binding]; other site 398577018207 catalytic residues [active] 398577018208 hypothetical protein; Provisional; Region: PRK07482 398577018209 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 398577018210 inhibitor-cofactor binding pocket; inhibition site 398577018211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577018212 catalytic residue [active] 398577018213 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398577018214 acyl-CoA synthetase; Validated; Region: PRK08162 398577018215 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 398577018216 acyl-activating enzyme (AAE) consensus motif; other site 398577018217 putative active site [active] 398577018218 AMP binding site [chemical binding]; other site 398577018219 putative CoA binding site [chemical binding]; other site 398577018220 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 398577018221 putative FMN binding site [chemical binding]; other site 398577018222 benzoate transport; Region: 2A0115; TIGR00895 398577018223 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018224 putative substrate translocation pore; other site 398577018225 Transposase, Mutator family; Region: Transposase_mut; pfam00872 398577018226 MULE transposase domain; Region: MULE; pfam10551 398577018227 Tannase and feruloyl esterase; Region: Tannase; pfam07519 398577018228 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577018229 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577018230 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577018231 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018232 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577018233 putative substrate translocation pore; other site 398577018234 DAK2 domain; Region: Dak2; pfam02734 398577018235 Integrase core domain; Region: rve; pfam00665 398577018236 Integrase core domain; Region: rve_2; pfam13333 398577018237 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 398577018238 galactarate dehydratase; Region: galactar-dH20; TIGR03248 398577018239 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 398577018240 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 398577018241 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577018242 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398577018243 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577018244 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 398577018245 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577018246 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018247 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577018248 putative substrate translocation pore; other site 398577018249 Cupin domain; Region: Cupin_2; pfam07883 398577018250 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 398577018251 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398577018252 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398577018253 shikimate binding site; other site 398577018254 NAD(P) binding site [chemical binding]; other site 398577018255 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 398577018256 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 398577018257 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 398577018258 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 398577018259 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 398577018260 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 398577018261 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577018262 NAD(P) binding site [chemical binding]; other site 398577018263 catalytic residues [active] 398577018264 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 398577018265 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 398577018266 Walker A motif; other site 398577018267 ATP binding site [chemical binding]; other site 398577018268 Walker B motif; other site 398577018269 arginine finger; other site 398577018270 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577018271 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577018272 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 398577018273 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 398577018274 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 398577018275 active site 398577018276 dimer interface [polypeptide binding]; other site 398577018277 non-prolyl cis peptide bond; other site 398577018278 insertion regions; other site 398577018279 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577018280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577018281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018282 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 398577018283 dimerization interface [polypeptide binding]; other site 398577018284 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577018285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018286 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 398577018287 dimerization interface [polypeptide binding]; other site 398577018288 substrate binding pocket [chemical binding]; other site 398577018289 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 398577018290 FAD binding domain; Region: FAD_binding_4; pfam01565 398577018291 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 398577018292 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 398577018293 Autoinducer binding domain; Region: Autoind_bind; pfam03472 398577018294 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 398577018295 DNA binding residues [nucleotide binding] 398577018296 dimerization interface [polypeptide binding]; other site 398577018297 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 398577018298 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577018299 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018300 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 398577018301 dimerization interface [polypeptide binding]; other site 398577018302 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 398577018303 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 398577018304 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 398577018305 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 398577018306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577018307 homodimer interface [polypeptide binding]; other site 398577018308 catalytic residue [active] 398577018309 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 398577018310 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 398577018311 active site 398577018312 Zn binding site [ion binding]; other site 398577018313 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398577018314 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 398577018315 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 398577018316 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 398577018317 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 398577018318 acyl-activating enzyme (AAE) consensus motif; other site 398577018319 AMP binding site [chemical binding]; other site 398577018320 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577018321 Autoinducer synthetase; Region: Autoind_synth; cl17404 398577018322 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 398577018323 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 398577018324 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 398577018325 nucleophilic elbow; other site 398577018326 catalytic triad; other site 398577018327 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 398577018328 Radical SAM superfamily; Region: Radical_SAM; pfam04055 398577018329 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 398577018330 FeS/SAM binding site; other site 398577018331 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 398577018332 CoenzymeA binding site [chemical binding]; other site 398577018333 subunit interaction site [polypeptide binding]; other site 398577018334 PHB binding site; other site 398577018335 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577018336 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 398577018337 dimerization interface [polypeptide binding]; other site 398577018338 ligand binding site [chemical binding]; other site 398577018339 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 398577018340 EamA-like transporter family; Region: EamA; pfam00892 398577018341 EamA-like transporter family; Region: EamA; pfam00892 398577018342 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577018343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018344 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 398577018345 dimerization interface [polypeptide binding]; other site 398577018346 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 398577018347 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577018348 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 398577018349 trimer interface [polypeptide binding]; other site 398577018350 eyelet of channel; other site 398577018351 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 398577018352 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 398577018353 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 398577018354 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577018355 Pirin-related protein [General function prediction only]; Region: COG1741 398577018356 Pirin; Region: Pirin; pfam02678 398577018357 LysR family transcriptional regulator; Provisional; Region: PRK14997 398577018358 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018359 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 398577018360 putative effector binding pocket; other site 398577018361 dimerization interface [polypeptide binding]; other site 398577018362 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 398577018363 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 398577018364 MEKHLA domain; Region: MEKHLA; pfam08670 398577018365 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 398577018366 NAD binding pocket [chemical binding]; other site 398577018367 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 398577018368 RES domain; Region: RES; pfam08808 398577018369 Predicted membrane protein [Function unknown]; Region: COG2259 398577018370 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 398577018371 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 398577018372 NADP binding site [chemical binding]; other site 398577018373 active site 398577018374 putative substrate binding site [chemical binding]; other site 398577018375 H-NS histone family; Region: Histone_HNS; pfam00816 398577018376 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577018377 Uncharacterized conserved protein [Function unknown]; Region: COG3268 398577018378 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 398577018379 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577018380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577018381 amino acid transporter; Region: 2A0306; TIGR00909 398577018382 hypothetical protein; Provisional; Region: PRK06541 398577018383 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 398577018384 inhibitor-cofactor binding pocket; inhibition site 398577018385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577018386 catalytic residue [active] 398577018387 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398577018388 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577018389 NAD binding site [chemical binding]; other site 398577018390 catalytic residues [active] 398577018391 Uncharacterized conserved protein [Function unknown]; Region: COG5476 398577018392 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 398577018393 MlrC C-terminus; Region: MlrC_C; pfam07171 398577018394 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 398577018395 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577018396 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 398577018397 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398577018398 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 398577018399 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 398577018400 Active site cavity [active] 398577018401 catalytic acid [active] 398577018402 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577018403 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577018404 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398577018405 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398577018406 inhibitor site; inhibition site 398577018407 active site 398577018408 dimer interface [polypeptide binding]; other site 398577018409 catalytic residue [active] 398577018410 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577018411 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018412 putative substrate translocation pore; other site 398577018413 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577018414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577018415 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577018416 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577018417 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577018418 MAPEG family; Region: MAPEG; pfam01124 398577018419 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577018420 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018421 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 398577018422 putative effector binding pocket; other site 398577018423 dimerization interface [polypeptide binding]; other site 398577018424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577018425 NmrA-like family; Region: NmrA; pfam05368 398577018426 NAD(P) binding site [chemical binding]; other site 398577018427 active site 398577018428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577018429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018430 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 398577018431 putative dimerization interface [polypeptide binding]; other site 398577018432 tricarballylate dehydrogenase; Validated; Region: PRK08274 398577018433 tricarballylate utilization protein B; Provisional; Region: PRK15033 398577018434 citrate-proton symporter; Provisional; Region: PRK15075 398577018435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018436 putative substrate translocation pore; other site 398577018437 Transcriptional regulators [Transcription]; Region: GntR; COG1802 398577018438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577018439 DNA-binding site [nucleotide binding]; DNA binding site 398577018440 FCD domain; Region: FCD; pfam07729 398577018441 chaperone protein DnaJ; Provisional; Region: PRK14282 398577018442 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 398577018443 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 398577018444 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 398577018445 DctM-like transporters; Region: DctM; pfam06808 398577018446 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 398577018447 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 398577018448 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 398577018449 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 398577018450 dimer interface [polypeptide binding]; other site 398577018451 ligand binding site [chemical binding]; other site 398577018452 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 398577018453 dimerization interface [polypeptide binding]; other site 398577018454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577018455 dimer interface [polypeptide binding]; other site 398577018456 putative CheW interface [polypeptide binding]; other site 398577018457 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 398577018458 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 398577018459 proline/glycine betaine transporter; Provisional; Region: PRK10642 398577018460 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018461 putative substrate translocation pore; other site 398577018462 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577018463 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 398577018464 trimer interface [polypeptide binding]; other site 398577018465 eyelet of channel; other site 398577018466 acetyl-CoA synthetase; Provisional; Region: PRK00174 398577018467 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 398577018468 active site 398577018469 CoA binding site [chemical binding]; other site 398577018470 acyl-activating enzyme (AAE) consensus motif; other site 398577018471 AMP binding site [chemical binding]; other site 398577018472 acetate binding site [chemical binding]; other site 398577018473 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 398577018474 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 398577018475 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 398577018476 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577018477 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 398577018478 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 398577018479 DNA binding residues [nucleotide binding] 398577018480 High potential iron-sulfur protein; Region: HIPIP; pfam01355 398577018481 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 398577018482 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 398577018483 substrate binding pocket [chemical binding]; other site 398577018484 membrane-bound complex binding site; other site 398577018485 hinge residues; other site 398577018486 Cytochrome c; Region: Cytochrom_C; pfam00034 398577018487 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 398577018488 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 398577018489 dimer interface [polypeptide binding]; other site 398577018490 Trp docking motif [polypeptide binding]; other site 398577018491 active site 398577018492 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 398577018493 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 398577018494 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 398577018495 Walker A motif; other site 398577018496 ATP binding site [chemical binding]; other site 398577018497 Walker B motif; other site 398577018498 arginine finger; other site 398577018499 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577018500 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 398577018501 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 398577018502 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 398577018503 coenzyme PQQ biosynthesis protein PqqD; Region: PQQ_PqqD; TIGR03859 398577018504 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 398577018505 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 398577018506 FeS/SAM binding site; other site 398577018507 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 398577018508 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577018509 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 398577018510 Bacterial sugar transferase; Region: Bac_transf; pfam02397 398577018511 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 398577018512 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 398577018513 SLBB domain; Region: SLBB; pfam10531 398577018514 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398577018515 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 398577018516 active site 398577018517 tyrosine kinase; Provisional; Region: PRK11519 398577018518 Chain length determinant protein; Region: Wzz; pfam02706 398577018519 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 398577018520 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 398577018521 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 398577018522 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 398577018523 putative acyl transferase; Provisional; Region: PRK10191 398577018524 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 398577018525 trimer interface [polypeptide binding]; other site 398577018526 active site 398577018527 substrate binding site [chemical binding]; other site 398577018528 CoA binding site [chemical binding]; other site 398577018529 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 398577018530 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577018531 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 398577018532 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 398577018533 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 398577018534 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 398577018535 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 398577018536 active site 398577018537 motif I; other site 398577018538 motif II; other site 398577018539 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 398577018540 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 398577018541 Ligand binding site; other site 398577018542 oligomer interface; other site 398577018543 KpsF/GutQ family protein; Region: kpsF; TIGR00393 398577018544 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 398577018545 putative active site [active] 398577018546 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 398577018547 BNR repeat-like domain; Region: BNR_2; pfam13088 398577018548 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 398577018549 active site 398577018550 tetramer interface; other site 398577018551 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 398577018552 H-NS histone family; Region: Histone_HNS; pfam00816 398577018553 Arginine degradation protein (predicted deacylase) [Amino acid transport and metabolism]; Region: RocB; COG4187 398577018554 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577018555 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 398577018556 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 398577018557 active site 398577018558 DNA binding site [nucleotide binding] 398577018559 Int/Topo IB signature motif; other site 398577018560 catalytic residues [active] 398577018561 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 398577018562 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 398577018563 putative ligand binding site [chemical binding]; other site 398577018564 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 398577018565 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577018566 Walker A/P-loop; other site 398577018567 ATP binding site [chemical binding]; other site 398577018568 Q-loop/lid; other site 398577018569 ABC transporter signature motif; other site 398577018570 Walker B; other site 398577018571 D-loop; other site 398577018572 H-loop/switch region; other site 398577018573 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577018574 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577018575 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 398577018576 TM-ABC transporter signature motif; other site 398577018577 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 398577018578 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577018579 TM-ABC transporter signature motif; other site 398577018580 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 398577018581 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 398577018582 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577018583 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 398577018584 dimer interface [polypeptide binding]; other site 398577018585 phosphorylation site [posttranslational modification] 398577018586 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 398577018587 ATP binding site [chemical binding]; other site 398577018588 Mg2+ binding site [ion binding]; other site 398577018589 G-X-G motif; other site 398577018590 Response regulator receiver domain; Region: Response_reg; pfam00072 398577018591 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 398577018592 active site 398577018593 phosphorylation site [posttranslational modification] 398577018594 intermolecular recognition site; other site 398577018595 dimerization interface [polypeptide binding]; other site 398577018596 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577018597 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577018598 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 398577018599 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 398577018600 trimer interface [polypeptide binding]; other site 398577018601 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 398577018602 trimer interface [polypeptide binding]; other site 398577018603 YadA-like C-terminal region; Region: YadA; pfam03895 398577018604 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398577018605 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577018606 ligand binding site [chemical binding]; other site 398577018607 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 398577018608 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00038 398577018609 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 398577018610 Cytochrome c; Region: Cytochrom_C; cl11414 398577018611 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398577018612 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 398577018613 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 398577018614 Subunit I/III interface [polypeptide binding]; other site 398577018615 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 398577018616 Subunit I/III interface [polypeptide binding]; other site 398577018617 Predicted small integral membrane protein [Function unknown]; Region: COG5605 398577018618 High potential iron-sulfur protein; Region: HIPIP; pfam01355 398577018619 cell density-dependent motility repressor; Provisional; Region: PRK10082 398577018620 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018621 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 398577018622 dimerization interface [polypeptide binding]; other site 398577018623 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577018624 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 398577018625 aspartate racemase; Region: asp_race; TIGR00035 398577018626 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 398577018627 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398577018628 aspartate racemase; Region: asp_race; TIGR00035 398577018629 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 398577018630 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398577018631 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398577018632 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577018633 Walker A/P-loop; other site 398577018634 ATP binding site [chemical binding]; other site 398577018635 Q-loop/lid; other site 398577018636 ABC transporter signature motif; other site 398577018637 Walker B; other site 398577018638 D-loop; other site 398577018639 H-loop/switch region; other site 398577018640 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577018641 Walker A/P-loop; other site 398577018642 ATP binding site [chemical binding]; other site 398577018643 Q-loop/lid; other site 398577018644 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 398577018645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577018646 Walker A/P-loop; other site 398577018647 ATP binding site [chemical binding]; other site 398577018648 Q-loop/lid; other site 398577018649 ABC transporter signature motif; other site 398577018650 Walker B; other site 398577018651 D-loop; other site 398577018652 H-loop/switch region; other site 398577018653 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 398577018654 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577018655 substrate binding pocket [chemical binding]; other site 398577018656 membrane-bound complex binding site; other site 398577018657 hinge residues; other site 398577018658 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577018659 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398577018660 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 398577018661 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577018662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018663 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 398577018664 putative effector binding pocket; other site 398577018665 putative dimerization interface [polypeptide binding]; other site 398577018666 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 398577018667 homotrimer interaction site [polypeptide binding]; other site 398577018668 putative active site [active] 398577018669 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 398577018670 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 398577018671 conserved cys residue [active] 398577018672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577018673 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 398577018674 SnoaL-like domain; Region: SnoaL_3; pfam13474 398577018675 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 398577018676 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 398577018677 conserved cys residue [active] 398577018678 short chain dehydrogenase; Provisional; Region: PRK06500 398577018679 classical (c) SDRs; Region: SDR_c; cd05233 398577018680 NAD(P) binding site [chemical binding]; other site 398577018681 active site 398577018682 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 398577018683 active site flap/lid [active] 398577018684 nucleophilic elbow; other site 398577018685 catalytic triad [active] 398577018686 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 398577018687 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577018688 active site 398577018689 catalytic tetrad [active] 398577018690 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 398577018691 classical (c) SDRs; Region: SDR_c; cd05233 398577018692 NAD(P) binding site [chemical binding]; other site 398577018693 active site 398577018694 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 398577018695 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 398577018696 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 398577018697 BNR repeat-like domain; Region: BNR_2; pfam13088 398577018698 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 398577018699 Na binding site [ion binding]; other site 398577018700 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 398577018701 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 398577018702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 398577018703 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 398577018704 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 398577018705 putative active site [active] 398577018706 metal binding site [ion binding]; metal-binding site 398577018707 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 398577018708 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 398577018709 inhibitor site; inhibition site 398577018710 active site 398577018711 dimer interface [polypeptide binding]; other site 398577018712 catalytic residue [active] 398577018713 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 398577018714 DEAD-like helicases superfamily; Region: DEXDc; smart00487 398577018715 ATP binding site [chemical binding]; other site 398577018716 Mg++ binding site [ion binding]; other site 398577018717 motif III; other site 398577018718 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 398577018719 nucleotide binding region [chemical binding]; other site 398577018720 ATP-binding site [chemical binding]; other site 398577018721 PLAT (Polycystin-1, Lipoxygenase, Alpha-Toxin) domain or LH2 (Lipoxygenase homology 2) domain. It consists of an eight stranded beta-barrel. The domain can be found in various domain architectures, in case of lipoxygenases, alpha toxin, lipases and...; Region: PLAT; cl00011 398577018722 benzoate transport; Region: 2A0115; TIGR00895 398577018723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018724 putative substrate translocation pore; other site 398577018725 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018726 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577018727 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577018728 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 398577018729 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 398577018730 active site 398577018731 Uncharacterized conserved protein [Function unknown]; Region: COG3777 398577018732 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398577018733 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 398577018734 active site 2 [active] 398577018735 active site 1 [active] 398577018736 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 398577018737 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018738 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 398577018739 putative dimerization interface [polypeptide binding]; other site 398577018740 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 398577018741 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 398577018742 substrate binding pocket [chemical binding]; other site 398577018743 membrane-bound complex binding site; other site 398577018744 hinge residues; other site 398577018745 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 398577018746 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 398577018747 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 398577018748 active site 398577018749 phosphorylation site [posttranslational modification] 398577018750 intermolecular recognition site; other site 398577018751 dimerization interface [polypeptide binding]; other site 398577018752 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398577018753 Zn2+ binding site [ion binding]; other site 398577018754 Mg2+ binding site [ion binding]; other site 398577018755 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 398577018756 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 398577018757 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 398577018758 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 398577018759 dimer interface [polypeptide binding]; other site 398577018760 phosphorylation site [posttranslational modification] 398577018761 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 398577018762 ATP binding site [chemical binding]; other site 398577018763 Mg2+ binding site [ion binding]; other site 398577018764 G-X-G motif; other site 398577018765 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 398577018766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577018767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018768 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 398577018769 putative dimerization interface [polypeptide binding]; other site 398577018770 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 398577018771 active site 398577018772 catalytic residues [active] 398577018773 metal binding site [ion binding]; metal-binding site 398577018774 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577018775 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577018776 benzoate transport; Region: 2A0115; TIGR00895 398577018777 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018778 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018779 Predicted membrane protein [Function unknown]; Region: COG2246 398577018780 GtrA-like protein; Region: GtrA; pfam04138 398577018781 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 398577018782 Ligand binding site; other site 398577018783 Putative Catalytic site; other site 398577018784 DXD motif; other site 398577018785 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 398577018786 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 398577018787 Flp/Fap pilin component; Region: Flp_Fap; cl01585 398577018788 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 398577018789 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 398577018790 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 398577018791 Walker A motif; other site 398577018792 ATP binding site [chemical binding]; other site 398577018793 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 398577018794 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 398577018795 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 398577018796 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 398577018797 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 398577018798 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 398577018799 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 398577018800 TadE-like protein; Region: TadE; pfam07811 398577018801 TadE-like protein; Region: TadE; pfam07811 398577018802 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398577018803 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 398577018804 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 398577018805 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 398577018806 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 398577018807 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 398577018808 ATP binding site [chemical binding]; other site 398577018809 Walker A motif; other site 398577018810 hexamer interface [polypeptide binding]; other site 398577018811 Walker B motif; other site 398577018812 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 398577018813 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577018814 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 398577018815 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 398577018816 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 398577018817 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 398577018818 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 398577018819 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 398577018820 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 398577018821 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398577018822 Beta-lactamase; Region: Beta-lactamase; pfam00144 398577018823 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 398577018824 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 398577018825 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577018826 short chain dehydrogenase; Provisional; Region: PRK08265 398577018827 classical (c) SDRs; Region: SDR_c; cd05233 398577018828 NAD(P) binding site [chemical binding]; other site 398577018829 active site 398577018830 Dienelactone hydrolase family; Region: DLH; pfam01738 398577018831 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 398577018832 SnoaL-like domain; Region: SnoaL_2; pfam12680 398577018833 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 398577018834 Probable transposase; Region: OrfB_IS605; pfam01385 398577018835 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577018836 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577018837 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577018838 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 398577018839 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 398577018840 substrate binding site [chemical binding]; other site 398577018841 catalytic Zn binding site [ion binding]; other site 398577018842 NAD binding site [chemical binding]; other site 398577018843 structural Zn binding site [ion binding]; other site 398577018844 dimer interface [polypeptide binding]; other site 398577018845 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 398577018846 putative metal binding site [ion binding]; other site 398577018847 putative homodimer interface [polypeptide binding]; other site 398577018848 putative homotetramer interface [polypeptide binding]; other site 398577018849 putative homodimer-homodimer interface [polypeptide binding]; other site 398577018850 putative allosteric switch controlling residues; other site 398577018851 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 398577018852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018853 LysR substrate binding domain; Region: LysR_substrate; pfam03466 398577018854 dimerization interface [polypeptide binding]; other site 398577018855 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398577018856 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398577018857 metal binding site [ion binding]; metal-binding site 398577018858 putative dimer interface [polypeptide binding]; other site 398577018859 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 398577018860 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 398577018861 substrate binding pocket [chemical binding]; other site 398577018862 membrane-bound complex binding site; other site 398577018863 hinge residues; other site 398577018864 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 398577018865 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 398577018866 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577018867 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 398577018868 DNA binding site [nucleotide binding] 398577018869 domain linker motif; other site 398577018870 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 398577018871 dimerization interface [polypeptide binding]; other site 398577018872 ligand binding site [chemical binding]; other site 398577018873 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 398577018874 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 398577018875 Walker A/P-loop; other site 398577018876 ATP binding site [chemical binding]; other site 398577018877 Q-loop/lid; other site 398577018878 ABC transporter signature motif; other site 398577018879 Walker B; other site 398577018880 D-loop; other site 398577018881 H-loop/switch region; other site 398577018882 TOBE domain; Region: TOBE_2; pfam08402 398577018883 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 398577018884 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 398577018885 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 398577018886 dimer interface [polypeptide binding]; other site 398577018887 putative PBP binding loops; other site 398577018888 ABC-ATPase subunit interface; other site 398577018889 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 398577018890 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 398577018891 dimer interface [polypeptide binding]; other site 398577018892 conserved gate region; other site 398577018893 putative PBP binding loops; other site 398577018894 ABC-ATPase subunit interface; other site 398577018895 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 398577018896 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 398577018897 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 398577018898 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 398577018899 sugar efflux transporter; Region: 2A0120; TIGR00899 398577018900 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018901 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; pfam07745 398577018902 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 398577018903 active site 398577018904 catalytic residues [active] 398577018905 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 398577018906 putative dimerization interface [polypeptide binding]; other site 398577018907 putative ligand binding site [chemical binding]; other site 398577018908 Transcriptional regulators [Transcription]; Region: PurR; COG1609 398577018909 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577018910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577018911 xylose isomerase; Provisional; Region: PRK05474 398577018912 xylose isomerase; Region: xylose_isom_A; TIGR02630 398577018913 xylulokinase; Provisional; Region: PRK15027 398577018914 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 398577018915 N- and C-terminal domain interface [polypeptide binding]; other site 398577018916 active site 398577018917 MgATP binding site [chemical binding]; other site 398577018918 catalytic site [active] 398577018919 metal binding site [ion binding]; metal-binding site 398577018920 xylulose binding site [chemical binding]; other site 398577018921 homodimer interface [polypeptide binding]; other site 398577018922 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 398577018923 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 398577018924 putative ligand binding site [chemical binding]; other site 398577018925 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 398577018926 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 398577018927 Walker A/P-loop; other site 398577018928 ATP binding site [chemical binding]; other site 398577018929 Q-loop/lid; other site 398577018930 ABC transporter signature motif; other site 398577018931 Walker B; other site 398577018932 D-loop; other site 398577018933 H-loop/switch region; other site 398577018934 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 398577018935 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 398577018936 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 398577018937 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577018938 TM-ABC transporter signature motif; other site 398577018939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577018940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577018941 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 398577018942 putative effector binding pocket; other site 398577018943 putative dimerization interface [polypeptide binding]; other site 398577018944 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 398577018945 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 398577018946 active site 398577018947 catalytic tetrad [active] 398577018948 Cupin domain; Region: Cupin_2; cl17218 398577018949 Protein of unknown function DUF72; Region: DUF72; pfam01904 398577018950 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 398577018951 CoA binding domain; Region: CoA_binding_2; pfam13380 398577018952 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 398577018953 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 398577018954 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 398577018955 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 398577018956 substrate binding site [chemical binding]; other site 398577018957 oxyanion hole (OAH) forming residues; other site 398577018958 trimer interface [polypeptide binding]; other site 398577018959 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 398577018960 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577018961 putative substrate translocation pore; other site 398577018962 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 398577018963 Transcriptional regulator [Transcription]; Region: IclR; COG1414 398577018964 Bacterial transcriptional regulator; Region: IclR; pfam01614 398577018965 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398577018966 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 398577018967 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 398577018968 active site 398577018969 Cache domain; Region: Cache_1; pfam02743 398577018970 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577018971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577018972 metal binding site [ion binding]; metal-binding site 398577018973 active site 398577018974 I-site; other site 398577018975 succinic semialdehyde dehydrogenase; Region: PLN02278 398577018976 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 398577018977 tetramerization interface [polypeptide binding]; other site 398577018978 NAD(P) binding site [chemical binding]; other site 398577018979 catalytic residues [active] 398577018980 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 398577018981 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 398577018982 putative DNA binding site [nucleotide binding]; other site 398577018983 putative Zn2+ binding site [ion binding]; other site 398577018984 AsnC family; Region: AsnC_trans_reg; pfam01037 398577018985 hypothetical protein; Provisional; Region: PRK05965 398577018986 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 398577018987 inhibitor-cofactor binding pocket; inhibition site 398577018988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577018989 catalytic residue [active] 398577018990 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 398577018991 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 398577018992 putative ligand binding site [chemical binding]; other site 398577018993 NAD binding site [chemical binding]; other site 398577018994 dimerization interface [polypeptide binding]; other site 398577018995 catalytic site [active] 398577018996 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398577018997 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577018998 Coenzyme A binding pocket [chemical binding]; other site 398577018999 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398577019000 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 398577019001 motif II; other site 398577019002 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 398577019003 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398577019004 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577019005 dimer interface [polypeptide binding]; other site 398577019006 putative CheW interface [polypeptide binding]; other site 398577019007 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 398577019008 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 398577019009 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 398577019010 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 398577019011 dimer interface [polypeptide binding]; other site 398577019012 conserved gate region; other site 398577019013 putative PBP binding loops; other site 398577019014 ABC-ATPase subunit interface; other site 398577019015 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 398577019016 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 398577019017 dimer interface [polypeptide binding]; other site 398577019018 conserved gate region; other site 398577019019 ABC-ATPase subunit interface; other site 398577019020 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 398577019021 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577019022 Walker A/P-loop; other site 398577019023 ATP binding site [chemical binding]; other site 398577019024 Q-loop/lid; other site 398577019025 ABC transporter signature motif; other site 398577019026 Walker B; other site 398577019027 D-loop; other site 398577019028 H-loop/switch region; other site 398577019029 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 398577019030 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 398577019031 Walker A/P-loop; other site 398577019032 ATP binding site [chemical binding]; other site 398577019033 Q-loop/lid; other site 398577019034 ABC transporter signature motif; other site 398577019035 Walker B; other site 398577019036 D-loop; other site 398577019037 H-loop/switch region; other site 398577019038 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 398577019039 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577019040 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577019041 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577019042 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577019043 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577019044 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 398577019045 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 398577019046 hydroxyglutarate oxidase; Provisional; Region: PRK11728 398577019047 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577019048 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 398577019049 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 398577019050 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577019051 NAD binding site [chemical binding]; other site 398577019052 catalytic residues [active] 398577019053 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 398577019054 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 398577019055 metal binding site [ion binding]; metal-binding site 398577019056 putative dimer interface [polypeptide binding]; other site 398577019057 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398577019058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577019059 Coenzyme A binding pocket [chemical binding]; other site 398577019060 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 398577019061 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 398577019062 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 398577019063 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 398577019064 N-terminal plug; other site 398577019065 ligand-binding site [chemical binding]; other site 398577019066 Response regulator receiver domain; Region: Response_reg; pfam00072 398577019067 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 398577019068 active site 398577019069 phosphorylation site [posttranslational modification] 398577019070 intermolecular recognition site; other site 398577019071 dimerization interface [polypeptide binding]; other site 398577019072 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577019073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577019074 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 398577019075 trimer interface [polypeptide binding]; other site 398577019076 Haemagglutinin; Region: HIM; pfam05662 398577019077 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 398577019078 Haemagglutinin; Region: HIM; pfam05662 398577019079 YadA-like C-terminal region; Region: YadA; pfam03895 398577019080 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 398577019081 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398577019082 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398577019083 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398577019084 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398577019085 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398577019086 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 398577019087 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 398577019088 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577019089 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577019090 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 398577019091 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 398577019092 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 398577019093 Walker A/P-loop; other site 398577019094 ATP binding site [chemical binding]; other site 398577019095 Q-loop/lid; other site 398577019096 ABC transporter signature motif; other site 398577019097 Walker B; other site 398577019098 D-loop; other site 398577019099 H-loop/switch region; other site 398577019100 Helix-turn-helix domain; Region: HTH_17; pfam12728 398577019101 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 398577019102 active site 398577019103 coenzyme A binding site [chemical binding]; other site 398577019104 citrylCoA binding site [chemical binding]; other site 398577019105 dimer interface [polypeptide binding]; other site 398577019106 Citrate synthase; Region: Citrate_synt; pfam00285 398577019107 oxalacetate/citrate binding site [chemical binding]; other site 398577019108 catalytic triad [active] 398577019109 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577019110 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 398577019111 active site 398577019112 metal binding site [ion binding]; metal-binding site 398577019113 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019114 D-galactonate transporter; Region: 2A0114; TIGR00893 398577019115 putative substrate translocation pore; other site 398577019116 classical (c) SDRs; Region: SDR_c; cd05233 398577019117 NAD(P) binding site [chemical binding]; other site 398577019118 active site 398577019119 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 398577019120 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 398577019121 dimerization interface [polypeptide binding]; other site 398577019122 ligand binding site [chemical binding]; other site 398577019123 NADP binding site [chemical binding]; other site 398577019124 catalytic site [active] 398577019125 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 398577019126 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 398577019127 active site 398577019128 catalytic triad [active] 398577019129 calcium binding site [ion binding]; other site 398577019130 H-NS histone family; Region: Histone_HNS; pfam00816 398577019131 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 398577019132 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 398577019133 Uncharacterized conserved protein [Function unknown]; Region: COG2128 398577019134 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 398577019135 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 398577019136 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577019137 DNA-binding site [nucleotide binding]; DNA binding site 398577019138 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 398577019139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577019140 homodimer interface [polypeptide binding]; other site 398577019141 catalytic residue [active] 398577019142 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 398577019143 Zn2+ binding site [ion binding]; other site 398577019144 Mg2+ binding site [ion binding]; other site 398577019145 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398577019146 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 398577019147 putative dimer interface [polypeptide binding]; other site 398577019148 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398577019149 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 398577019150 putative dimer interface [polypeptide binding]; other site 398577019151 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398577019152 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 398577019153 putative dimer interface [polypeptide binding]; other site 398577019154 Probable transposase; Region: OrfB_IS605; pfam01385 398577019155 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577019156 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577019157 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 398577019158 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 398577019159 ring oligomerisation interface [polypeptide binding]; other site 398577019160 ATP/Mg binding site [chemical binding]; other site 398577019161 stacking interactions; other site 398577019162 hinge regions; other site 398577019163 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 398577019164 oligomerisation interface [polypeptide binding]; other site 398577019165 mobile loop; other site 398577019166 roof hairpin; other site 398577019167 SnoaL-like domain; Region: SnoaL_2; pfam12680 398577019168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577019169 NAD(P) binding site [chemical binding]; other site 398577019170 active site 398577019171 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577019172 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 398577019173 dimerization interface [polypeptide binding]; other site 398577019174 ligand binding site [chemical binding]; other site 398577019175 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 398577019176 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 398577019177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577019178 homodimer interface [polypeptide binding]; other site 398577019179 catalytic residue [active] 398577019180 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 398577019181 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 398577019182 TM-ABC transporter signature motif; other site 398577019183 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 398577019184 TM-ABC transporter signature motif; other site 398577019185 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 398577019186 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 398577019187 Walker A/P-loop; other site 398577019188 ATP binding site [chemical binding]; other site 398577019189 Q-loop/lid; other site 398577019190 ABC transporter signature motif; other site 398577019191 Walker B; other site 398577019192 D-loop; other site 398577019193 H-loop/switch region; other site 398577019194 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 398577019195 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 398577019196 Walker A/P-loop; other site 398577019197 ATP binding site [chemical binding]; other site 398577019198 Q-loop/lid; other site 398577019199 ABC transporter signature motif; other site 398577019200 Walker B; other site 398577019201 D-loop; other site 398577019202 H-loop/switch region; other site 398577019203 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577019204 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019205 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 398577019206 putative effector binding pocket; other site 398577019207 dimerization interface [polypeptide binding]; other site 398577019208 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398577019209 Amidase; Region: Amidase; cl11426 398577019210 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019211 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577019212 putative substrate translocation pore; other site 398577019213 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 398577019214 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577019215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577019216 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 398577019217 Helix-turn-helix domain; Region: HTH_18; pfam12833 398577019218 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577019219 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 398577019220 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 398577019221 homodimer interface [polypeptide binding]; other site 398577019222 substrate-cofactor binding pocket; other site 398577019223 catalytic residue [active] 398577019224 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577019225 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 398577019226 NAD(P) binding site [chemical binding]; other site 398577019227 catalytic residues [active] 398577019228 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 398577019229 PYR/PP interface [polypeptide binding]; other site 398577019230 dimer interface [polypeptide binding]; other site 398577019231 TPP binding site [chemical binding]; other site 398577019232 Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six...; Region: TPP_ComE; cd03372 398577019233 sulfopyruvate decarboxylase, beta subunit; Region: sulfopy_beta; TIGR03846 398577019234 TPP-binding site; other site 398577019235 choline dehydrogenase; Validated; Region: PRK02106 398577019236 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577019237 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 398577019238 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 398577019239 CoenzymeA binding site [chemical binding]; other site 398577019240 subunit interaction site [polypeptide binding]; other site 398577019241 PHB binding site; other site 398577019242 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577019243 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577019244 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 398577019245 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019246 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 398577019247 substrate binding pocket [chemical binding]; other site 398577019248 dimerization interface [polypeptide binding]; other site 398577019249 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577019250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019251 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 398577019252 dimerization interface [polypeptide binding]; other site 398577019253 substrate binding pocket [chemical binding]; other site 398577019254 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019255 putative substrate translocation pore; other site 398577019256 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577019257 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 398577019258 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398577019259 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398577019260 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019261 putative substrate translocation pore; other site 398577019262 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 398577019263 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 398577019264 motif II; other site 398577019265 cell density-dependent motility repressor; Provisional; Region: PRK10082 398577019266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019267 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 398577019268 dimerization interface [polypeptide binding]; other site 398577019269 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 398577019270 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577019271 catalytic residue [active] 398577019272 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 398577019273 homotrimer interaction site [polypeptide binding]; other site 398577019274 putative active site [active] 398577019275 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577019276 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398577019277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577019278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019279 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 398577019280 putative dimerization interface [polypeptide binding]; other site 398577019281 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 398577019282 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398577019283 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577019284 Coenzyme A binding pocket [chemical binding]; other site 398577019285 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577019286 hypothetical protein; Provisional; Region: PRK05939 398577019287 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 398577019288 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 398577019289 catalytic residue [active] 398577019290 glutathione reductase; Validated; Region: PRK06116 398577019291 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577019292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577019293 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 398577019294 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 398577019295 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 398577019296 dimer interface [polypeptide binding]; other site 398577019297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577019298 catalytic residue [active] 398577019299 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 398577019300 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 398577019301 putative NAD(P) binding site [chemical binding]; other site 398577019302 putative substrate binding site [chemical binding]; other site 398577019303 catalytic Zn binding site [ion binding]; other site 398577019304 structural Zn binding site [ion binding]; other site 398577019305 short chain dehydrogenase; Provisional; Region: PRK06500 398577019306 classical (c) SDRs; Region: SDR_c; cd05233 398577019307 NAD(P) binding site [chemical binding]; other site 398577019308 active site 398577019309 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 398577019310 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 398577019311 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 398577019312 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 398577019313 Transcriptional activator [Transcription]; Region: ChrR; COG3806 398577019314 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 398577019315 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 398577019316 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 398577019317 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 398577019318 classical (c) SDRs; Region: SDR_c; cd05233 398577019319 NAD(P) binding site [chemical binding]; other site 398577019320 active site 398577019321 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577019322 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019323 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 398577019324 dimerization interface [polypeptide binding]; other site 398577019325 substrate binding pocket [chemical binding]; other site 398577019326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577019327 WHG domain; Region: WHG; pfam13305 398577019328 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 398577019329 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577019330 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577019331 short chain dehydrogenase; Provisional; Region: PRK06181 398577019332 classical (c) SDRs; Region: SDR_c; cd05233 398577019333 NAD(P) binding site [chemical binding]; other site 398577019334 active site 398577019335 OsmC-like protein; Region: OsmC; pfam02566 398577019336 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 398577019337 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 398577019338 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 398577019339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 398577019340 Coenzyme A binding pocket [chemical binding]; other site 398577019341 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 398577019342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019343 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 398577019344 dimerization interface [polypeptide binding]; other site 398577019345 substrate binding pocket [chemical binding]; other site 398577019346 argininosuccinate lyase; Provisional; Region: PRK00855 398577019347 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 398577019348 active sites [active] 398577019349 tetramer interface [polypeptide binding]; other site 398577019350 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 398577019351 dimer interface [polypeptide binding]; other site 398577019352 conserved gate region; other site 398577019353 putative PBP binding loops; other site 398577019354 ABC-ATPase subunit interface; other site 398577019355 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 398577019356 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 398577019357 Walker A/P-loop; other site 398577019358 ATP binding site [chemical binding]; other site 398577019359 Q-loop/lid; other site 398577019360 ABC transporter signature motif; other site 398577019361 Walker B; other site 398577019362 D-loop; other site 398577019363 H-loop/switch region; other site 398577019364 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 398577019365 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 398577019366 substrate binding pocket [chemical binding]; other site 398577019367 membrane-bound complex binding site; other site 398577019368 hinge residues; other site 398577019369 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 398577019370 active site 398577019371 catalytic site [active] 398577019372 Zn binding site [ion binding]; other site 398577019373 tetramer interface [polypeptide binding]; other site 398577019374 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 398577019375 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 398577019376 active site 398577019377 catalytic site [active] 398577019378 Zn binding site [ion binding]; other site 398577019379 tetramer interface [polypeptide binding]; other site 398577019380 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 398577019381 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 398577019382 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 398577019383 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 398577019384 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 398577019385 Autotransporter beta-domain; Region: Autotransporter; pfam03797 398577019386 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 398577019387 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 398577019388 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 398577019389 dimer interface [polypeptide binding]; other site 398577019390 putative CheW interface [polypeptide binding]; other site 398577019391 FOG: CBS domain [General function prediction only]; Region: COG0517 398577019392 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 398577019393 FOG: CBS domain [General function prediction only]; Region: COG0517 398577019394 FOG: CBS domain [General function prediction only]; Region: COG0517 398577019395 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 398577019396 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 398577019397 PAS domain; Region: PAS_9; pfam13426 398577019398 putative active site [active] 398577019399 heme pocket [chemical binding]; other site 398577019400 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 398577019401 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 398577019402 metal binding site [ion binding]; metal-binding site 398577019403 active site 398577019404 I-site; other site 398577019405 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 398577019406 FOG: CBS domain [General function prediction only]; Region: COG0517 398577019407 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 398577019408 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 398577019409 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 398577019410 active site 398577019411 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 398577019412 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 398577019413 putative PBP binding loops; other site 398577019414 dimer interface [polypeptide binding]; other site 398577019415 ABC-ATPase subunit interface; other site 398577019416 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 398577019417 dimer interface [polypeptide binding]; other site 398577019418 conserved gate region; other site 398577019419 putative PBP binding loops; other site 398577019420 ABC-ATPase subunit interface; other site 398577019421 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 398577019422 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577019423 Walker A/P-loop; other site 398577019424 ATP binding site [chemical binding]; other site 398577019425 Q-loop/lid; other site 398577019426 ABC transporter signature motif; other site 398577019427 Walker B; other site 398577019428 D-loop; other site 398577019429 H-loop/switch region; other site 398577019430 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 398577019431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 398577019432 AAA domain; Region: AAA_33; pfam13671 398577019433 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 398577019434 active site 398577019435 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 398577019436 Ligand Binding Site [chemical binding]; other site 398577019437 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398577019438 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398577019439 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 398577019440 putative dimer interface [polypeptide binding]; other site 398577019441 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 398577019442 putative FMN binding site [chemical binding]; other site 398577019443 NADPH bind site [chemical binding]; other site 398577019444 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 398577019445 BON domain; Region: BON; pfam04972 398577019446 BON domain; Region: BON; pfam04972 398577019447 BON domain; Region: BON; pfam04972 398577019448 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 398577019449 Cytochrome c; Region: Cytochrom_C; cl11414 398577019450 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 398577019451 FMN binding site [chemical binding]; other site 398577019452 dimer interface [polypeptide binding]; other site 398577019453 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 398577019454 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 398577019455 ligand binding site [chemical binding]; other site 398577019456 flexible hinge region; other site 398577019457 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 398577019458 putative switch regulator; other site 398577019459 non-specific DNA interactions [nucleotide binding]; other site 398577019460 DNA binding site [nucleotide binding] 398577019461 sequence specific DNA binding site [nucleotide binding]; other site 398577019462 putative cAMP binding site [chemical binding]; other site 398577019463 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 398577019464 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 398577019465 active site 398577019466 phosphorylation site [posttranslational modification] 398577019467 intermolecular recognition site; other site 398577019468 dimerization interface [polypeptide binding]; other site 398577019469 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 398577019470 DNA binding residues [nucleotide binding] 398577019471 dimerization interface [polypeptide binding]; other site 398577019472 CHASE domain; Region: CHASE; cl01369 398577019473 PAS domain S-box; Region: sensory_box; TIGR00229 398577019474 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 398577019475 putative active site [active] 398577019476 heme pocket [chemical binding]; other site 398577019477 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 398577019478 Histidine kinase; Region: HisKA_3; pfam07730 398577019479 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 398577019480 ATP binding site [chemical binding]; other site 398577019481 Mg2+ binding site [ion binding]; other site 398577019482 G-X-G motif; other site 398577019483 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 398577019484 Ligand Binding Site [chemical binding]; other site 398577019485 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 398577019486 Ligand Binding Site [chemical binding]; other site 398577019487 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 398577019488 Ligand Binding Site [chemical binding]; other site 398577019489 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 398577019490 Ligand Binding Site [chemical binding]; other site 398577019491 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 398577019492 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 398577019493 Beta-Casp domain; Region: Beta-Casp; pfam10996 398577019494 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 398577019495 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 398577019496 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 398577019497 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398577019498 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398577019499 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 398577019500 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398577019501 Walker A/P-loop; other site 398577019502 ATP binding site [chemical binding]; other site 398577019503 Q-loop/lid; other site 398577019504 ABC transporter signature motif; other site 398577019505 Walker B; other site 398577019506 D-loop; other site 398577019507 H-loop/switch region; other site 398577019508 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 398577019509 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 398577019510 Walker A/P-loop; other site 398577019511 ATP binding site [chemical binding]; other site 398577019512 Q-loop/lid; other site 398577019513 ABC transporter signature motif; other site 398577019514 Walker B; other site 398577019515 D-loop; other site 398577019516 H-loop/switch region; other site 398577019517 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 398577019518 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 398577019519 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577019520 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577019521 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 398577019522 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 398577019523 BON domain; Region: BON; pfam04972 398577019524 BON domain; Region: BON; pfam04972 398577019525 BON domain; Region: BON; pfam04972 398577019526 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 398577019527 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 398577019528 Walker A motif; other site 398577019529 ATP binding site [chemical binding]; other site 398577019530 Walker B motif; other site 398577019531 arginine finger; other site 398577019532 Peptidase family M41; Region: Peptidase_M41; pfam01434 398577019533 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 398577019534 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 398577019535 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 398577019536 active site 398577019537 dimer interface [polypeptide binding]; other site 398577019538 effector binding site; other site 398577019539 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 398577019540 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 398577019541 putative substrate binding site [chemical binding]; other site 398577019542 putative ATP binding site [chemical binding]; other site 398577019543 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 398577019544 putative active site [active] 398577019545 putative metal binding site [ion binding]; other site 398577019546 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 398577019547 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 398577019548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 398577019549 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 398577019550 Beta-lactamase; Region: Beta-lactamase; pfam00144 398577019551 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 398577019552 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 398577019553 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 398577019554 FOG: CBS domain [General function prediction only]; Region: COG0517 398577019555 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 398577019556 BON domain; Region: BON; pfam04972 398577019557 CreA protein; Region: CreA; pfam05981 398577019558 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 398577019559 Dihaem cytochrome c; Region: DHC; pfam09626 398577019560 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 398577019561 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 398577019562 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 398577019563 active site 398577019564 phosphorylation site [posttranslational modification] 398577019565 intermolecular recognition site; other site 398577019566 dimerization interface [polypeptide binding]; other site 398577019567 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 398577019568 DNA binding site [nucleotide binding] 398577019569 sensor protein QseC; Provisional; Region: PRK10337 398577019570 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 398577019571 dimer interface [polypeptide binding]; other site 398577019572 phosphorylation site [posttranslational modification] 398577019573 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 398577019574 ATP binding site [chemical binding]; other site 398577019575 Mg2+ binding site [ion binding]; other site 398577019576 G-X-G motif; other site 398577019577 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 398577019578 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 398577019579 Cation efflux family; Region: Cation_efflux; cl00316 398577019580 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398577019581 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 398577019582 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 398577019583 Soluble P-type ATPase [General function prediction only]; Region: COG4087 398577019584 Hemerythrin-like domain; Region: Hr-like; cd12108 398577019585 Fe binding site [ion binding]; other site 398577019586 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 398577019587 Ligand Binding Site [chemical binding]; other site 398577019588 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 398577019589 Ligand Binding Site [chemical binding]; other site 398577019590 Hemerythrin-like domain; Region: Hr-like; cd12108 398577019591 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019592 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577019593 putative substrate translocation pore; other site 398577019594 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 398577019595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577019596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019597 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 398577019598 putative effector binding pocket; other site 398577019599 dimerization interface [polypeptide binding]; other site 398577019600 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019601 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577019602 putative substrate translocation pore; other site 398577019603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577019604 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019605 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 398577019606 substrate binding pocket [chemical binding]; other site 398577019607 dimerization interface [polypeptide binding]; other site 398577019608 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398577019609 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398577019610 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398577019611 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577019612 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 398577019613 active site 398577019614 metal binding site [ion binding]; metal-binding site 398577019615 (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 398577019616 active site 398577019617 catalytic site [active] 398577019618 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 398577019619 CoA-transferase family III; Region: CoA_transf_3; pfam02515 398577019620 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 398577019621 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 398577019622 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 398577019623 shikimate binding site; other site 398577019624 NAD(P) binding site [chemical binding]; other site 398577019625 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 398577019626 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 398577019627 putative PBP binding loops; other site 398577019628 dimer interface [polypeptide binding]; other site 398577019629 ABC-ATPase subunit interface; other site 398577019630 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 398577019631 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 398577019632 Walker A/P-loop; other site 398577019633 ATP binding site [chemical binding]; other site 398577019634 Q-loop/lid; other site 398577019635 ABC transporter signature motif; other site 398577019636 Walker B; other site 398577019637 D-loop; other site 398577019638 H-loop/switch region; other site 398577019639 NMT1-like family; Region: NMT1_2; pfam13379 398577019640 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 398577019641 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 398577019642 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 398577019643 active site 398577019644 iron coordination sites [ion binding]; other site 398577019645 substrate binding pocket [chemical binding]; other site 398577019646 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 398577019647 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 398577019648 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 398577019649 dimer interface [polypeptide binding]; other site 398577019650 phosphorylation site [posttranslational modification] 398577019651 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 398577019652 ATP binding site [chemical binding]; other site 398577019653 Mg2+ binding site [ion binding]; other site 398577019654 G-X-G motif; other site 398577019655 Response regulator receiver domain; Region: Response_reg; pfam00072 398577019656 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 398577019657 active site 398577019658 phosphorylation site [posttranslational modification] 398577019659 intermolecular recognition site; other site 398577019660 dimerization interface [polypeptide binding]; other site 398577019661 MgtC family; Region: MgtC; pfam02308 398577019662 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 398577019663 non-specific DNA binding site [nucleotide binding]; other site 398577019664 salt bridge; other site 398577019665 sequence-specific DNA binding site [nucleotide binding]; other site 398577019666 HipA N-terminal domain; Region: Couple_hipA; pfam13657 398577019667 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 398577019668 HipA-like N-terminal domain; Region: HipA_N; pfam07805 398577019669 HipA-like C-terminal domain; Region: HipA_C; pfam07804 398577019670 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 398577019671 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 398577019672 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 398577019673 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 398577019674 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 398577019675 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 398577019676 putative TOMM peptide; Region: TOMM_nitrile_2; TIGR04351 398577019677 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 398577019678 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 398577019679 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 398577019680 amidase; Provisional; Region: PRK07235 398577019681 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 398577019682 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577019683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577019684 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 398577019685 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 398577019686 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 398577019687 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 398577019688 S-adenosylmethionine binding site [chemical binding]; other site 398577019689 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 398577019690 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 398577019691 PhnA protein; Region: PhnA; pfam03831 398577019692 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; cl00206 398577019693 regulatory phosphorylation site [posttranslational modification]; other site 398577019694 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 398577019695 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 398577019696 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577019697 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 398577019698 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019699 putative substrate translocation pore; other site 398577019700 HlyD family secretion protein; Region: HlyD; pfam00529 398577019701 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577019702 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577019703 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 398577019704 BON domain; Region: BON; pfam04972 398577019705 FRG domain; Region: FRG; pfam08867 398577019706 Domain of unknown function (DUF305); Region: DUF305; cl17794 398577019707 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 398577019708 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577019709 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 398577019710 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 398577019711 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_3; cd03328 398577019712 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 398577019713 putative active site pocket [active] 398577019714 putative metal binding site [ion binding]; other site 398577019715 thiamine pyrophosphate protein; Provisional; Region: PRK08273 398577019716 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 398577019717 PYR/PP interface [polypeptide binding]; other site 398577019718 dimer interface [polypeptide binding]; other site 398577019719 tetramer interface [polypeptide binding]; other site 398577019720 TPP binding site [chemical binding]; other site 398577019721 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 398577019722 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 398577019723 TPP-binding site [chemical binding]; other site 398577019724 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 398577019725 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 398577019726 short chain dehydrogenase; Provisional; Region: PRK09072 398577019727 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 398577019728 putative NAD(P) binding site [chemical binding]; other site 398577019729 active site 398577019730 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 398577019731 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 398577019732 Cytochrome c; Region: Cytochrom_C; pfam00034 398577019733 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 398577019734 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 398577019735 D-pathway; other site 398577019736 Putative ubiquinol binding site [chemical binding]; other site 398577019737 Low-spin heme (heme b) binding site [chemical binding]; other site 398577019738 Putative water exit pathway; other site 398577019739 Binuclear center (heme o3/CuB) [ion binding]; other site 398577019740 K-pathway; other site 398577019741 Putative proton exit pathway; other site 398577019742 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 398577019743 Subunit I/III interface [polypeptide binding]; other site 398577019744 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577019745 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 398577019746 Cytochrome c; Region: Cytochrom_C; pfam00034 398577019747 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 398577019748 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 398577019749 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 398577019750 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 398577019751 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 398577019752 HlyD family secretion protein; Region: HlyD_3; pfam13437 398577019753 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 398577019754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577019755 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 398577019756 homotrimer interaction site [polypeptide binding]; other site 398577019757 putative active site [active] 398577019758 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 398577019759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 398577019760 NAD(P) binding site [chemical binding]; other site 398577019761 active site 398577019762 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 398577019763 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 398577019764 catalytic loop [active] 398577019765 iron binding site [ion binding]; other site 398577019766 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 398577019767 FAD binding pocket [chemical binding]; other site 398577019768 FAD binding motif [chemical binding]; other site 398577019769 phosphate binding motif [ion binding]; other site 398577019770 beta-alpha-beta structure motif; other site 398577019771 NAD binding pocket [chemical binding]; other site 398577019772 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 398577019773 inter-subunit interface; other site 398577019774 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 398577019775 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 398577019776 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 398577019777 putative alpha subunit interface [polypeptide binding]; other site 398577019778 putative active site [active] 398577019779 putative substrate binding site [chemical binding]; other site 398577019780 Fe binding site [ion binding]; other site 398577019781 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 398577019782 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 398577019783 dimer interface [polypeptide binding]; other site 398577019784 active site 398577019785 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 398577019786 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 398577019787 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 398577019788 octamer interface [polypeptide binding]; other site 398577019789 active site 398577019790 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 398577019791 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 398577019792 NAD(P) binding site [chemical binding]; other site 398577019793 catalytic residues [active] 398577019794 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 398577019795 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 398577019796 catalytic Zn binding site [ion binding]; other site 398577019797 NAD binding site [chemical binding]; other site 398577019798 structural Zn binding site [ion binding]; other site 398577019799 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 398577019800 putative DNA binding site [nucleotide binding]; other site 398577019801 putative Zn2+ binding site [ion binding]; other site 398577019802 putative arabinose transporter; Provisional; Region: PRK03545 398577019803 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019804 putative substrate translocation pore; other site 398577019805 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 398577019806 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 398577019807 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 398577019808 motif II; other site 398577019809 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398577019810 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 398577019811 putative active site [active] 398577019812 catalytic site [active] 398577019813 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 398577019814 putative active site [active] 398577019815 catalytic site [active] 398577019816 Uncharacterized conserved protein [Function unknown]; Region: COG0398 398577019817 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 398577019818 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 398577019819 putative catalytic site [active] 398577019820 putative metal binding site [ion binding]; other site 398577019821 putative phosphate binding site [ion binding]; other site 398577019822 PAAR motif; Region: PAAR_motif; cl15808 398577019823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577019824 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577019825 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 398577019826 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577019827 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577019828 Alpha amylase catalytic domain family; Region: AmyAc_family; cd00551 398577019829 active site 398577019830 catalytic site [active] 398577019831 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 398577019832 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 398577019833 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 398577019834 active site 398577019835 homodimer interface [polypeptide binding]; other site 398577019836 catalytic site [active] 398577019837 acceptor binding site [chemical binding]; other site 398577019838 trehalose synthase; Region: treS_nterm; TIGR02456 398577019839 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 398577019840 active site 398577019841 catalytic site [active] 398577019842 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 398577019843 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 398577019844 glycogen branching enzyme; Provisional; Region: PRK05402 398577019845 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 398577019846 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 398577019847 active site 398577019848 catalytic site [active] 398577019849 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 398577019850 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 398577019851 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 398577019852 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 398577019853 active site 398577019854 catalytic site [active] 398577019855 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 398577019856 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 398577019857 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 398577019858 active site 398577019859 catalytic site [active] 398577019860 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 398577019861 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 398577019862 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 398577019863 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 398577019864 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 398577019865 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 398577019866 active site 398577019867 catalytic site [active] 398577019868 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 398577019869 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 398577019870 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 398577019871 arsenical-resistance protein; Region: acr3; TIGR00832 398577019872 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 398577019873 Low molecular weight phosphatase family; Region: LMWPc; cd00115 398577019874 active site 398577019875 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 398577019876 dimerization interface [polypeptide binding]; other site 398577019877 putative DNA binding site [nucleotide binding]; other site 398577019878 putative Zn2+ binding site [ion binding]; other site 398577019879 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 398577019880 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 398577019881 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 398577019882 intracellular protease, PfpI family; Region: PfpI; TIGR01382 398577019883 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 398577019884 proposed catalytic triad [active] 398577019885 conserved cys residue [active] 398577019886 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 398577019887 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 398577019888 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 398577019889 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 398577019890 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 398577019891 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 398577019892 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 398577019893 active site 398577019894 DNA binding site [nucleotide binding] 398577019895 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 398577019896 DNA binding site [nucleotide binding] 398577019897 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 398577019898 nucleotide binding site [chemical binding]; other site 398577019899 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 398577019900 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 398577019901 putative DNA binding site [nucleotide binding]; other site 398577019902 putative homodimer interface [polypeptide binding]; other site 398577019903 hydroperoxidase II; Provisional; Region: katE; PRK11249 398577019904 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 398577019905 tetramer interface [polypeptide binding]; other site 398577019906 heme binding pocket [chemical binding]; other site 398577019907 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 398577019908 domain interactions; other site 398577019909 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 398577019910 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 398577019911 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 398577019912 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 398577019913 FOG: CBS domain [General function prediction only]; Region: COG0517 398577019914 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 398577019915 PRC-barrel domain; Region: PRC; pfam05239 398577019916 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 398577019917 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 398577019918 ligand binding site [chemical binding]; other site 398577019919 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 398577019920 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 398577019921 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 398577019922 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 398577019923 TPR repeat; Region: TPR_11; pfam13414 398577019924 TPR repeat; Region: TPR_11; pfam13414 398577019925 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 398577019926 TPR motif; other site 398577019927 binding surface 398577019928 TPR repeat; Region: TPR_11; pfam13414 398577019929 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 398577019930 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 398577019931 citrate-proton symporter; Provisional; Region: PRK15075 398577019932 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019933 putative substrate translocation pore; other site 398577019934 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 398577019935 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 398577019936 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 398577019937 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 398577019938 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577019939 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019940 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 398577019941 putative dimerization interface [polypeptide binding]; other site 398577019942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577019943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577019944 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 398577019945 putative effector binding pocket; other site 398577019946 putative dimerization interface [polypeptide binding]; other site 398577019947 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577019948 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577019949 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577019950 putative substrate translocation pore; other site 398577019951 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 398577019952 Response regulator receiver domain; Region: Response_reg; pfam00072 398577019953 active site 398577019954 phosphorylation site [posttranslational modification] 398577019955 intermolecular recognition site; other site 398577019956 dimerization interface [polypeptide binding]; other site 398577019957 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 398577019958 Fe-S cluster binding site [ion binding]; other site 398577019959 active site 398577019960 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 398577019961 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 398577019962 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 398577019963 short chain dehydrogenase; Provisional; Region: PRK06701 398577019964 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 398577019965 NAD binding site [chemical binding]; other site 398577019966 metal binding site [ion binding]; metal-binding site 398577019967 active site 398577019968 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 398577019969 short chain dehydrogenase; Provisional; Region: PRK07109 398577019970 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 398577019971 putative NAD(P) binding site [chemical binding]; other site 398577019972 active site 398577019973 BON domain; Region: BON; pfam04972 398577019974 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 398577019975 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 398577019976 putative ADP-binding pocket [chemical binding]; other site 398577019977 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 398577019978 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 398577019979 NAD binding site [chemical binding]; other site 398577019980 putative substrate binding site 2 [chemical binding]; other site 398577019981 putative substrate binding site 1 [chemical binding]; other site 398577019982 active site 398577019983 PAS fold; Region: PAS; pfam00989 398577019984 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 398577019985 putative active site [active] 398577019986 heme pocket [chemical binding]; other site 398577019987 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398577019988 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 398577019989 putative active site [active] 398577019990 heme pocket [chemical binding]; other site 398577019991 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 398577019992 dimer interface [polypeptide binding]; other site 398577019993 phosphorylation site [posttranslational modification] 398577019994 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 398577019995 ATP binding site [chemical binding]; other site 398577019996 Mg2+ binding site [ion binding]; other site 398577019997 G-X-G motif; other site 398577019998 Response regulator receiver domain; Region: Response_reg; pfam00072 398577019999 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 398577020000 active site 398577020001 phosphorylation site [posttranslational modification] 398577020002 intermolecular recognition site; other site 398577020003 dimerization interface [polypeptide binding]; other site 398577020004 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 398577020005 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398577020006 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 398577020007 Probable Catalytic site; other site 398577020008 metal-binding site 398577020009 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 398577020010 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 398577020011 active site 398577020012 phosphorylation site [posttranslational modification] 398577020013 intermolecular recognition site; other site 398577020014 dimerization interface [polypeptide binding]; other site 398577020015 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 398577020016 Walker A motif; other site 398577020017 ATP binding site [chemical binding]; other site 398577020018 Walker B motif; other site 398577020019 arginine finger; other site 398577020020 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 398577020021 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 398577020022 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 398577020023 Walker A motif; other site 398577020024 ATP binding site [chemical binding]; other site 398577020025 Walker B motif; other site 398577020026 arginine finger; other site 398577020027 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 398577020028 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 398577020029 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 398577020030 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398577020031 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 398577020032 putative active site [active] 398577020033 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 398577020034 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 398577020035 active site 398577020036 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 398577020037 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 398577020038 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 398577020039 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 398577020040 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 398577020041 putative active site [active] 398577020042 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 398577020043 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 398577020044 active site 398577020045 motif I; other site 398577020046 motif II; other site 398577020047 short chain dehydrogenase; Provisional; Region: PRK07326 398577020048 classical (c) SDRs; Region: SDR_c; cd05233 398577020049 NAD(P) binding site [chemical binding]; other site 398577020050 active site 398577020051 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 398577020052 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 398577020053 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 398577020054 Walker A/P-loop; other site 398577020055 ATP binding site [chemical binding]; other site 398577020056 Q-loop/lid; other site 398577020057 ABC transporter signature motif; other site 398577020058 Walker B; other site 398577020059 D-loop; other site 398577020060 H-loop/switch region; other site 398577020061 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 398577020062 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 398577020063 active site 398577020064 phosphorylation site [posttranslational modification] 398577020065 intermolecular recognition site; other site 398577020066 dimerization interface [polypeptide binding]; other site 398577020067 BON domain; Region: BON; pfam04972 398577020068 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 398577020069 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 398577020070 putative active site [active] 398577020071 heme pocket [chemical binding]; other site 398577020072 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 398577020073 dimer interface [polypeptide binding]; other site 398577020074 phosphorylation site [posttranslational modification] 398577020075 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 398577020076 ATP binding site [chemical binding]; other site 398577020077 Mg2+ binding site [ion binding]; other site 398577020078 G-X-G motif; other site 398577020079 Response regulator receiver domain; Region: Response_reg; pfam00072 398577020080 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 398577020081 active site 398577020082 phosphorylation site [posttranslational modification] 398577020083 intermolecular recognition site; other site 398577020084 dimerization interface [polypeptide binding]; other site 398577020085 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 398577020086 dimerization interface [polypeptide binding]; other site 398577020087 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 398577020088 [2Fe-2S] cluster binding site [ion binding]; other site 398577020089 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 398577020090 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577020091 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 398577020092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577020093 DNA-binding site [nucleotide binding]; DNA binding site 398577020094 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 398577020095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577020096 homodimer interface [polypeptide binding]; other site 398577020097 catalytic residue [active] 398577020098 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 398577020099 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 398577020100 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 398577020101 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 398577020102 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 398577020103 Clp amino terminal domain; Region: Clp_N; pfam02861 398577020104 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 398577020105 Walker A motif; other site 398577020106 ATP binding site [chemical binding]; other site 398577020107 Walker B motif; other site 398577020108 arginine finger; other site 398577020109 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 398577020110 Walker A motif; other site 398577020111 ATP binding site [chemical binding]; other site 398577020112 Walker B motif; other site 398577020113 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 398577020114 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 398577020115 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 398577020116 putative molybdopterin cofactor binding site [chemical binding]; other site 398577020117 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 398577020118 putative molybdopterin cofactor binding site; other site 398577020119 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 398577020120 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 398577020121 Transcriptional regulator [Transcription]; Region: LysR; COG0583 398577020122 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 398577020123 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 398577020124 putative substrate binding pocket [chemical binding]; other site 398577020125 dimerization interface [polypeptide binding]; other site 398577020126 acetylornithine deacetylase; Provisional; Region: PRK07522 398577020127 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 398577020128 metal binding site [ion binding]; metal-binding site 398577020129 putative dimer interface [polypeptide binding]; other site 398577020130 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 398577020131 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 398577020132 homotrimer interaction site [polypeptide binding]; other site 398577020133 putative active site [active] 398577020134 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 398577020135 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 398577020136 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 398577020137 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 398577020138 Sel1-like repeats; Region: SEL1; smart00671 398577020139 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577020140 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398577020141 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577020142 putative active site [active] 398577020143 catalytic site [active] 398577020144 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577020145 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 398577020146 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 398577020147 putative active site [active] 398577020148 catalytic site [active] 398577020149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577020150 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577020151 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577020152 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577020153 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577020154 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 398577020155 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 398577020156 active site 398577020157 HIGH motif; other site 398577020158 dimer interface [polypeptide binding]; other site 398577020159 KMSKS motif; other site 398577020160 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 398577020161 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 398577020162 PAAR motif; Region: PAAR_motif; pfam05488 398577020163 PAAR motif; Region: PAAR_motif; pfam05488 398577020164 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 398577020165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 398577020166 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 398577020167 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 398577020168 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 398577020169 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 398577020170 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 398577020171 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 398577020172 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 398577020173 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 398577020174 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 398577020175 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 398577020176 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 398577020177 dimer interface [polypeptide binding]; other site 398577020178 putative functional site; other site 398577020179 putative MPT binding site; other site 398577020180 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 398577020181 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 398577020182 FeS/SAM binding site; other site 398577020183 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 398577020184 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 398577020185 MoaE homodimer interface [polypeptide binding]; other site 398577020186 MoaD interaction [polypeptide binding]; other site 398577020187 active site residues [active] 398577020188 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 398577020189 MoaE interaction surface [polypeptide binding]; other site 398577020190 MoeB interaction surface [polypeptide binding]; other site 398577020191 thiocarboxylated glycine; other site 398577020192 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 398577020193 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 398577020194 substrate binding site [chemical binding]; other site 398577020195 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 398577020196 substrate binding site [chemical binding]; other site 398577020197 ligand binding site [chemical binding]; other site 398577020198 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 398577020199 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577020200 DNA-binding site [nucleotide binding]; DNA binding site 398577020201 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 398577020202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577020203 homodimer interface [polypeptide binding]; other site 398577020204 catalytic residue [active] 398577020205 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 398577020206 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 398577020207 DNA-binding site [nucleotide binding]; DNA binding site 398577020208 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 398577020209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 398577020210 homodimer interface [polypeptide binding]; other site 398577020211 catalytic residue [active] 398577020212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 398577020213 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 398577020214 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 398577020215 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 398577020216 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 398577020217 dimerization interface [polypeptide binding]; other site 398577020218 ligand binding site [chemical binding]; other site 398577020219 Phage integrase protein; Region: DUF3701; pfam12482 398577020220 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 398577020221 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 398577020222 Int/Topo IB signature motif; other site 398577020223 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 398577020224 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577020225 putative substrate translocation pore; other site 398577020226 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 398577020227 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 398577020228 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 398577020229 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 398577020230 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 398577020231 4Fe-4S binding domain; Region: Fer4; cl02805 398577020232 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 398577020233 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 398577020234 [4Fe-4S] binding site [ion binding]; other site 398577020235 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 398577020236 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 398577020237 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 398577020238 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 398577020239 molybdopterin cofactor binding site; other site 398577020240 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 398577020241 Tetratricopeptide repeat; Region: TPR_12; pfam13424 398577020242 binding surface 398577020243 TPR motif; other site 398577020244 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 398577020245 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 398577020246 Ligand Binding Site [chemical binding]; other site 398577020247 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 398577020248 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577020249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577020250 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 398577020251 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 398577020252 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 398577020253 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 398577020254 Probable transposase; Region: OrfB_IS605; pfam01385 398577020255 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 398577020256 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 398577020257 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 398577020258 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 398577020259 short chain dehydrogenase; Provisional; Region: PRK06180 398577020260 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398577020261 NADP binding site [chemical binding]; other site 398577020262 active site 398577020263 steroid binding site; other site 398577020264 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 398577020265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577020266 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 398577020267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 398577020268 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 398577020269 active site 398577020270 catalytic residues [active] 398577020271 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 398577020272 metabolite-proton symporter; Region: 2A0106; TIGR00883 398577020273 putative substrate translocation pore; other site 398577020274 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 398577020275 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 398577020276 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 398577020277 Putative zinc-finger; Region: zf-HC2; pfam13490 398577020278 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 398577020279 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 398577020280 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 398577020281 DNA binding residues [nucleotide binding] 398577020282 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 398577020283 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 398577020284 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 398577020285 peptide synthase; Provisional; Region: PRK12467 398577020286 Major Facilitator Superfamily; Region: MFS_1; pfam07690 398577020287 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398577020288 short chain dehydrogenase; Provisional; Region: PRK06180 398577020289 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 398577020290 NADP binding site [chemical binding]; other site 398577020291 active site 398577020292 steroid binding site; other site 398577020293 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 398577020294 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 398577020295 phosphorylation site [posttranslational modification] 398577020296 dimer interface [polypeptide binding]; other site 398577020297 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 398577020298 ATP binding site [chemical binding]; other site 398577020299 Mg2+ binding site [ion binding]; other site 398577020300 G-X-G motif; other site 398577020301 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 398577020302 Response regulator receiver domain; Region: Response_reg; pfam00072 398577020303 active site 398577020304 phosphorylation site [posttranslational modification] 398577020305 intermolecular recognition site; other site 398577020306 dimerization interface [polypeptide binding]; other site 398577020307 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 398577020308 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 398577020309 active site 398577020310 phosphorylation site [posttranslational modification] 398577020311 intermolecular recognition site; other site 398577020312 dimerization interface [polypeptide binding]; other site 398577020313 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 398577020314 DNA binding residues [nucleotide binding] 398577020315 dimerization interface [polypeptide binding]; other site 398577020316 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 398577020317 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 398577020318 activation loop (A-loop); other site 398577020319 Predicted ATPase [General function prediction only]; Region: COG3899 398577020320 AAA ATPase domain; Region: AAA_16; pfam13191 398577020321 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398577020322 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398577020323 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 398577020324 dimer interface [polypeptide binding]; other site 398577020325 phosphorylation site [posttranslational modification] 398577020326 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 398577020327 ATP binding site [chemical binding]; other site 398577020328 Mg2+ binding site [ion binding]; other site 398577020329 G-X-G motif; other site 398577020330 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 398577020331 BON domain; Region: BON; pfam04972 398577020332 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 398577020333 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 398577020334 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 398577020335 dimer interface [polypeptide binding]; other site 398577020336 phosphorylation site [posttranslational modification] 398577020337 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 398577020338 ATP binding site [chemical binding]; other site 398577020339 Mg2+ binding site [ion binding]; other site 398577020340 G-X-G motif; other site