-- dump date 20140619_120539 -- class Genbank::misc_feature -- table misc_feature_note -- id note 880591000001 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 880591000002 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880591000003 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 880591000004 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 880591000005 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 880591000006 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 880591000007 Protein of unknown function (DUF736); Region: DUF736; pfam05284 880591000008 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 880591000009 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 880591000010 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880591000011 catalytic residue [active] 880591000012 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591000013 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591000014 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 880591000015 putative effector binding pocket; other site 880591000016 putative dimerization interface [polypeptide binding]; other site 880591000017 short chain dehydrogenase; Provisional; Region: PRK06172 880591000018 classical (c) SDRs; Region: SDR_c; cd05233 880591000019 NAD(P) binding site [chemical binding]; other site 880591000020 active site 880591000021 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 880591000022 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 880591000023 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880591000024 active site 880591000025 catalytic tetrad [active] 880591000026 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591000027 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591000028 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 880591000029 dimerization interface [polypeptide binding]; other site 880591000030 substrate binding pocket [chemical binding]; other site 880591000031 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 880591000032 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 880591000033 Walker A motif; other site 880591000034 ATP binding site [chemical binding]; other site 880591000035 Walker B motif; other site 880591000036 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 880591000037 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 880591000038 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 880591000039 Walker A motif; other site 880591000040 ATP binding site [chemical binding]; other site 880591000041 Walker B motif; other site 880591000042 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 880591000043 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 880591000044 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 880591000045 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 880591000046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591000047 Walker A/P-loop; other site 880591000048 ATP binding site [chemical binding]; other site 880591000049 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 880591000050 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 880591000051 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 880591000052 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 880591000053 conjugal transfer protein TrbL; Provisional; Region: PRK13875 880591000054 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 880591000055 conjugal transfer protein TrbF; Provisional; Region: PRK13872 880591000056 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 880591000057 VirB7 interaction site; other site 880591000058 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 880591000059 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 880591000060 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 880591000061 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 880591000062 HsdM N-terminal domain; Region: HsdM_N; pfam12161 880591000063 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 880591000064 S-adenosylmethionine binding site [chemical binding]; other site 880591000065 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 880591000066 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 880591000067 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 880591000068 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591000069 Walker A/P-loop; other site 880591000070 ATP binding site [chemical binding]; other site 880591000071 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 880591000072 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 880591000073 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 880591000074 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 880591000075 ATP binding site [chemical binding]; other site 880591000076 putative Mg++ binding site [ion binding]; other site 880591000077 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 880591000078 hypothetical protein; Provisional; Region: PRK09897 880591000079 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 880591000080 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 880591000081 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591000082 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 880591000083 dimer interface [polypeptide binding]; other site 880591000084 conserved gate region; other site 880591000085 putative PBP binding loops; other site 880591000086 ABC-ATPase subunit interface; other site 880591000087 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591000088 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 880591000089 dimer interface [polypeptide binding]; other site 880591000090 conserved gate region; other site 880591000091 putative PBP binding loops; other site 880591000092 ABC-ATPase subunit interface; other site 880591000093 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880591000094 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000095 Walker A/P-loop; other site 880591000096 ATP binding site [chemical binding]; other site 880591000097 Q-loop/lid; other site 880591000098 ABC transporter signature motif; other site 880591000099 Walker B; other site 880591000100 D-loop; other site 880591000101 H-loop/switch region; other site 880591000102 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 880591000103 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 880591000104 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000105 Walker A/P-loop; other site 880591000106 ATP binding site [chemical binding]; other site 880591000107 Q-loop/lid; other site 880591000108 ABC transporter signature motif; other site 880591000109 Walker B; other site 880591000110 D-loop; other site 880591000111 H-loop/switch region; other site 880591000112 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591000113 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 880591000114 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 880591000115 hypothetical protein; Validated; Region: PRK06201 880591000116 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 880591000117 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591000118 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000119 Walker A/P-loop; other site 880591000120 ATP binding site [chemical binding]; other site 880591000121 Q-loop/lid; other site 880591000122 ABC transporter signature motif; other site 880591000123 Walker B; other site 880591000124 D-loop; other site 880591000125 H-loop/switch region; other site 880591000126 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591000127 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000128 Walker A/P-loop; other site 880591000129 ATP binding site [chemical binding]; other site 880591000130 Q-loop/lid; other site 880591000131 ABC transporter signature motif; other site 880591000132 Walker B; other site 880591000133 D-loop; other site 880591000134 H-loop/switch region; other site 880591000135 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591000136 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591000137 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591000138 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591000139 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 880591000140 dimer interface [polypeptide binding]; other site 880591000141 conserved gate region; other site 880591000142 putative PBP binding loops; other site 880591000143 ABC-ATPase subunit interface; other site 880591000144 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591000145 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 880591000146 dimer interface [polypeptide binding]; other site 880591000147 conserved gate region; other site 880591000148 putative PBP binding loops; other site 880591000149 ABC-ATPase subunit interface; other site 880591000150 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591000151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591000152 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 880591000153 dimerization interface [polypeptide binding]; other site 880591000154 substrate binding pocket [chemical binding]; other site 880591000155 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 880591000156 PRC-barrel domain; Region: PRC; pfam05239 880591000157 PRC-barrel domain; Region: PRC; pfam05239 880591000158 PRC-barrel domain; Region: PRC; pfam05239 880591000159 TspO/MBR family; Region: TspO_MBR; pfam03073 880591000160 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 880591000161 PAS domain; Region: PAS_9; pfam13426 880591000162 putative active site [active] 880591000163 heme pocket [chemical binding]; other site 880591000164 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 880591000165 PAS fold; Region: PAS_3; pfam08447 880591000166 putative active site [active] 880591000167 heme pocket [chemical binding]; other site 880591000168 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 880591000169 HWE histidine kinase; Region: HWE_HK; smart00911 880591000170 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 880591000171 dimerization interface [polypeptide binding]; other site 880591000172 metal binding site [ion binding]; metal-binding site 880591000173 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880591000174 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 880591000175 CheB methylesterase; Region: CheB_methylest; pfam01339 880591000176 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 880591000177 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 880591000178 PAS domain; Region: PAS_10; pfam13596 880591000179 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 880591000180 HWE histidine kinase; Region: HWE_HK; smart00911 880591000181 RNA polymerase sigma factor; Provisional; Region: PRK12547 880591000182 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591000183 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 880591000184 DNA binding residues [nucleotide binding] 880591000185 two-component response regulator; Provisional; Region: PRK09191 880591000186 PRC-barrel domain; Region: PRC; pfam05239 880591000187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591000188 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 880591000189 NAD(P) binding site [chemical binding]; other site 880591000190 active site 880591000191 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 880591000192 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 880591000193 heme binding pocket [chemical binding]; other site 880591000194 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 880591000195 domain interactions; other site 880591000196 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 880591000197 active site 880591000198 DNA binding site [nucleotide binding] 880591000199 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 880591000200 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 880591000201 dimer interface [polypeptide binding]; other site 880591000202 conserved gate region; other site 880591000203 putative PBP binding loops; other site 880591000204 ABC-ATPase subunit interface; other site 880591000205 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 880591000206 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 880591000207 Walker A/P-loop; other site 880591000208 ATP binding site [chemical binding]; other site 880591000209 Q-loop/lid; other site 880591000210 ABC transporter signature motif; other site 880591000211 Walker B; other site 880591000212 D-loop; other site 880591000213 H-loop/switch region; other site 880591000214 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 880591000215 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 880591000216 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_3; cd06151 880591000217 homotrimer interaction site [polypeptide binding]; other site 880591000218 putative active site [active] 880591000219 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880591000220 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880591000221 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 880591000222 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880591000223 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 880591000224 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 880591000225 active site 880591000226 non-prolyl cis peptide bond; other site 880591000227 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591000228 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591000229 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591000230 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 880591000231 dimer interface [polypeptide binding]; other site 880591000232 conserved gate region; other site 880591000233 putative PBP binding loops; other site 880591000234 ABC-ATPase subunit interface; other site 880591000235 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591000236 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 880591000237 dimer interface [polypeptide binding]; other site 880591000238 conserved gate region; other site 880591000239 putative PBP binding loops; other site 880591000240 ABC-ATPase subunit interface; other site 880591000241 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591000242 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000243 Walker A/P-loop; other site 880591000244 ATP binding site [chemical binding]; other site 880591000245 Q-loop/lid; other site 880591000246 ABC transporter signature motif; other site 880591000247 Walker B; other site 880591000248 D-loop; other site 880591000249 H-loop/switch region; other site 880591000250 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591000251 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000252 Walker A/P-loop; other site 880591000253 ATP binding site [chemical binding]; other site 880591000254 Q-loop/lid; other site 880591000255 ABC transporter signature motif; other site 880591000256 Walker B; other site 880591000257 D-loop; other site 880591000258 H-loop/switch region; other site 880591000259 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591000260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591000261 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 880591000262 dimerization interface [polypeptide binding]; other site 880591000263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 880591000264 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 880591000265 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 880591000266 Transcriptional regulator [Transcription]; Region: IclR; COG1414 880591000267 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 880591000268 Bacterial transcriptional regulator; Region: IclR; pfam01614 880591000269 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 880591000270 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 880591000271 ligand binding site [chemical binding]; other site 880591000272 NAD binding site [chemical binding]; other site 880591000273 dimerization interface [polypeptide binding]; other site 880591000274 catalytic site [active] 880591000275 hypothetical protein; Validated; Region: PRK06201 880591000276 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 880591000277 NMT1/THI5 like; Region: NMT1; pfam09084 880591000278 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591000279 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591000280 Walker A/P-loop; other site 880591000281 ATP binding site [chemical binding]; other site 880591000282 Q-loop/lid; other site 880591000283 ABC transporter signature motif; other site 880591000284 Walker B; other site 880591000285 D-loop; other site 880591000286 H-loop/switch region; other site 880591000287 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591000288 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 880591000289 dimer interface [polypeptide binding]; other site 880591000290 conserved gate region; other site 880591000291 putative PBP binding loops; other site 880591000292 ABC-ATPase subunit interface; other site 880591000293 YKOF-related Family; Region: Ykof; pfam07615 880591000294 YKOF-related Family; Region: Ykof; pfam07615 880591000295 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 880591000296 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 880591000297 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 880591000298 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 880591000299 HWE histidine kinase; Region: HWE_HK; pfam07536 880591000300 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 880591000301 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 880591000302 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 880591000303 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 880591000304 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 880591000305 Walker A/P-loop; other site 880591000306 ATP binding site [chemical binding]; other site 880591000307 Q-loop/lid; other site 880591000308 ABC transporter signature motif; other site 880591000309 Walker B; other site 880591000310 D-loop; other site 880591000311 H-loop/switch region; other site 880591000312 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 880591000313 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 880591000314 dimer interface [polypeptide binding]; other site 880591000315 conserved gate region; other site 880591000316 ABC-ATPase subunit interface; other site 880591000317 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 880591000318 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 880591000319 dimer interface [polypeptide binding]; other site 880591000320 conserved gate region; other site 880591000321 putative PBP binding loops; other site 880591000322 ABC-ATPase subunit interface; other site 880591000323 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 880591000324 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880591000325 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 880591000326 ABC-ATPase subunit interface; other site 880591000327 dimer interface [polypeptide binding]; other site 880591000328 putative PBP binding regions; other site 880591000329 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 880591000330 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 880591000331 ABC-ATPase subunit interface; other site 880591000332 dimer interface [polypeptide binding]; other site 880591000333 putative PBP binding regions; other site 880591000334 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 880591000335 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880591000336 Walker A/P-loop; other site 880591000337 ATP binding site [chemical binding]; other site 880591000338 Q-loop/lid; other site 880591000339 ABC transporter signature motif; other site 880591000340 Walker B; other site 880591000341 D-loop; other site 880591000342 H-loop/switch region; other site 880591000343 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 880591000344 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 880591000345 intersubunit interface [polypeptide binding]; other site 880591000346 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880591000347 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; cl17196 880591000348 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_2; cd08498 880591000349 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591000350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 880591000351 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 880591000352 Fic/DOC family; Region: Fic; pfam02661 880591000353 Fic family protein [Function unknown]; Region: COG3177 880591000354 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 880591000355 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 880591000356 NMT1/THI5 like; Region: NMT1; pfam09084 880591000357 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591000358 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591000359 Walker A/P-loop; other site 880591000360 ATP binding site [chemical binding]; other site 880591000361 Q-loop/lid; other site 880591000362 ABC transporter signature motif; other site 880591000363 Walker B; other site 880591000364 D-loop; other site 880591000365 H-loop/switch region; other site 880591000366 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591000367 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 880591000368 dimer interface [polypeptide binding]; other site 880591000369 conserved gate region; other site 880591000370 ABC-ATPase subunit interface; other site 880591000371 BCCT family transporter; Region: BCCT; pfam02028 880591000372 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 880591000373 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880591000374 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000375 ABC transporter signature motif; other site 880591000376 Walker B; other site 880591000377 D-loop; other site 880591000378 H-loop/switch region; other site 880591000379 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591000380 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591000381 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000382 Walker A/P-loop; other site 880591000383 ATP binding site [chemical binding]; other site 880591000384 Q-loop/lid; other site 880591000385 ABC transporter signature motif; other site 880591000386 Walker B; other site 880591000387 D-loop; other site 880591000388 H-loop/switch region; other site 880591000389 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591000390 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591000391 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 880591000392 dimer interface [polypeptide binding]; other site 880591000393 conserved gate region; other site 880591000394 putative PBP binding loops; other site 880591000395 ABC-ATPase subunit interface; other site 880591000396 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591000397 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 880591000398 dimer interface [polypeptide binding]; other site 880591000399 conserved gate region; other site 880591000400 putative PBP binding loops; other site 880591000401 ABC-ATPase subunit interface; other site 880591000402 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 880591000403 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591000404 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591000405 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591000406 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591000407 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591000408 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591000409 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591000410 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 880591000411 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 880591000412 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 880591000413 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 880591000414 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 880591000415 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 880591000416 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 880591000417 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 880591000418 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 880591000419 homodimer interface [polypeptide binding]; other site 880591000420 substrate-cofactor binding pocket; other site 880591000421 catalytic residue [active] 880591000422 putative S-transferase; Provisional; Region: PRK11752 880591000423 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 880591000424 C-terminal domain interface [polypeptide binding]; other site 880591000425 GSH binding site (G-site) [chemical binding]; other site 880591000426 dimer interface [polypeptide binding]; other site 880591000427 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 880591000428 dimer interface [polypeptide binding]; other site 880591000429 N-terminal domain interface [polypeptide binding]; other site 880591000430 active site 880591000431 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 880591000432 HEAT repeats; Region: HEAT_2; pfam13646 880591000433 Cytochrome c; Region: Cytochrom_C; pfam00034 880591000434 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 880591000435 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 880591000436 Transcriptional regulators [Transcription]; Region: FadR; COG2186 880591000437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591000438 DNA-binding site [nucleotide binding]; DNA binding site 880591000439 FCD domain; Region: FCD; pfam07729 880591000440 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880591000441 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 880591000442 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 880591000443 active site 880591000444 Uncharacterized conserved protein [Function unknown]; Region: COG3379 880591000445 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 880591000446 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880591000447 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 880591000448 active site 880591000449 metal binding site [ion binding]; metal-binding site 880591000450 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880591000451 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880591000452 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880591000453 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880591000454 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880591000455 mannonate dehydratase; Provisional; Region: PRK03906 880591000456 mannonate dehydratase; Region: uxuA; TIGR00695 880591000457 potential frameshift: common BLAST hit: gi|158424971|ref|YP_001526263.1| mannitol dehydrogenase 880591000458 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 880591000459 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 880591000460 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 880591000461 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 880591000462 glucuronate isomerase; Reviewed; Region: PRK02925 880591000463 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 880591000464 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880591000465 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 880591000466 ATP binding site [chemical binding]; other site 880591000467 Mg2+ binding site [ion binding]; other site 880591000468 G-X-G motif; other site 880591000469 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880591000470 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 880591000471 active site 880591000472 phosphorylation site [posttranslational modification] 880591000473 intermolecular recognition site; other site 880591000474 dimerization interface [polypeptide binding]; other site 880591000475 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 880591000476 DNA binding site [nucleotide binding] 880591000477 Predicted membrane protein [Function unknown]; Region: COG3212 880591000478 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 880591000479 Initiator Replication protein; Region: Rep_3; pfam01051 880591000480 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 880591000481 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 880591000482 P-loop; other site 880591000483 Magnesium ion binding site [ion binding]; other site 880591000484 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 880591000485 Magnesium ion binding site [ion binding]; other site 880591000486 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591000487 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591000488 DNA binding site [nucleotide binding] 880591000489 domain linker motif; other site 880591000490 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 880591000491 dimerization interface [polypeptide binding]; other site 880591000492 ligand binding site [chemical binding]; other site 880591000493 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880591000494 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 880591000495 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 880591000496 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 880591000497 dimer interface [polypeptide binding]; other site 880591000498 conserved gate region; other site 880591000499 putative PBP binding loops; other site 880591000500 ABC-ATPase subunit interface; other site 880591000501 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591000502 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 880591000503 dimer interface [polypeptide binding]; other site 880591000504 conserved gate region; other site 880591000505 putative PBP binding loops; other site 880591000506 ABC-ATPase subunit interface; other site 880591000507 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 880591000508 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 880591000509 Walker A/P-loop; other site 880591000510 ATP binding site [chemical binding]; other site 880591000511 Q-loop/lid; other site 880591000512 ABC transporter signature motif; other site 880591000513 Walker B; other site 880591000514 D-loop; other site 880591000515 H-loop/switch region; other site 880591000516 TOBE domain; Region: TOBE_2; pfam08402 880591000517 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880591000518 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880591000519 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 880591000520 dimer interface [polypeptide binding]; other site 880591000521 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 880591000522 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 880591000523 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 880591000524 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880591000525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591000526 NAD(P) binding site [chemical binding]; other site 880591000527 active site 880591000528 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 880591000529 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 880591000530 dimer interface [polypeptide binding]; other site 880591000531 active site 880591000532 CoA binding pocket [chemical binding]; other site 880591000533 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591000534 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591000535 WHG domain; Region: WHG; pfam13305 880591000536 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 880591000537 ParB-like nuclease domain; Region: ParB; smart00470 880591000538 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 880591000539 MerR family regulatory protein; Region: MerR; pfam00376 880591000540 DNA binding residues [nucleotide binding] 880591000541 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 880591000542 P-loop; other site 880591000543 Magnesium ion binding site [ion binding]; other site 880591000544 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 880591000545 Magnesium ion binding site [ion binding]; other site 880591000546 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 880591000547 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 880591000548 FAD binding pocket [chemical binding]; other site 880591000549 FAD binding motif [chemical binding]; other site 880591000550 phosphate binding motif [ion binding]; other site 880591000551 NAD binding pocket [chemical binding]; other site 880591000552 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 880591000553 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880591000554 Walker A/P-loop; other site 880591000555 ATP binding site [chemical binding]; other site 880591000556 Q-loop/lid; other site 880591000557 ABC transporter signature motif; other site 880591000558 Walker B; other site 880591000559 D-loop; other site 880591000560 H-loop/switch region; other site 880591000561 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880591000562 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 880591000563 dimer interface [polypeptide binding]; other site 880591000564 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880591000565 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 880591000566 ABC-ATPase subunit interface; other site 880591000567 dimer interface [polypeptide binding]; other site 880591000568 putative PBP binding regions; other site 880591000569 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 880591000570 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 880591000571 siderophore binding site; other site 880591000572 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 880591000573 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 880591000574 N-terminal plug; other site 880591000575 ligand-binding site [chemical binding]; other site 880591000576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880591000577 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880591000578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880591000579 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 880591000580 Flavodoxin; Region: Flavodoxin_1; pfam00258 880591000581 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 880591000582 FAD binding pocket [chemical binding]; other site 880591000583 FAD binding motif [chemical binding]; other site 880591000584 catalytic residues [active] 880591000585 NAD binding pocket [chemical binding]; other site 880591000586 phosphate binding motif [ion binding]; other site 880591000587 beta-alpha-beta structure motif; other site 880591000588 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 880591000589 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 880591000590 active site 880591000591 dimer interface [polypeptide binding]; other site 880591000592 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 880591000593 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 880591000594 active site 880591000595 FMN binding site [chemical binding]; other site 880591000596 substrate binding site [chemical binding]; other site 880591000597 3Fe-4S cluster binding site [ion binding]; other site 880591000598 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 880591000599 domain_subunit interface; other site 880591000600 Pirin-related protein [General function prediction only]; Region: COG1741 880591000601 Pirin; Region: Pirin; pfam02678 880591000602 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 880591000603 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 880591000604 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591000605 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591000606 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 880591000607 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591000608 Trp docking motif [polypeptide binding]; other site 880591000609 active site 880591000610 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 880591000611 Predicted membrane protein [Function unknown]; Region: COG2860 880591000612 UPF0126 domain; Region: UPF0126; pfam03458 880591000613 UPF0126 domain; Region: UPF0126; pfam03458 880591000614 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 880591000615 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 880591000616 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880591000617 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 880591000618 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880591000619 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 880591000620 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 880591000621 catalytic loop [active] 880591000622 iron binding site [ion binding]; other site 880591000623 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 880591000624 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591000625 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000626 Walker A/P-loop; other site 880591000627 ATP binding site [chemical binding]; other site 880591000628 Q-loop/lid; other site 880591000629 ABC transporter signature motif; other site 880591000630 Walker B; other site 880591000631 D-loop; other site 880591000632 H-loop/switch region; other site 880591000633 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591000634 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591000635 Walker A/P-loop; other site 880591000636 ATP binding site [chemical binding]; other site 880591000637 Q-loop/lid; other site 880591000638 ABC transporter signature motif; other site 880591000639 Walker B; other site 880591000640 D-loop; other site 880591000641 H-loop/switch region; other site 880591000642 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591000643 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; cl10015 880591000644 homotrimer interaction site [polypeptide binding]; other site 880591000645 putative active site [active] 880591000646 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; cl10015 880591000647 homotrimer interaction site [polypeptide binding]; other site 880591000648 putative active site [active] 880591000649 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591000650 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 880591000651 dimer interface [polypeptide binding]; other site 880591000652 conserved gate region; other site 880591000653 putative PBP binding loops; other site 880591000654 ABC-ATPase subunit interface; other site 880591000655 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591000656 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 880591000657 dimer interface [polypeptide binding]; other site 880591000658 conserved gate region; other site 880591000659 putative PBP binding loops; other site 880591000660 ABC-ATPase subunit interface; other site 880591000661 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591000662 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591000663 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 880591000664 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591000665 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 880591000666 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 880591000667 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 880591000668 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591000669 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591000670 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 880591000671 dimerization interface [polypeptide binding]; other site 880591000672 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 880591000673 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 880591000674 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880591000675 active site 880591000676 catalytic tetrad [active] 880591000677 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 880591000678 substrate binding pocket [chemical binding]; other site 880591000679 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 880591000680 active site 880591000681 iron coordination sites [ion binding]; other site 880591000682 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 880591000683 Part of AAA domain; Region: AAA_19; pfam13245 880591000684 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 880591000685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591000686 Walker A/P-loop; other site 880591000687 ATP binding site [chemical binding]; other site 880591000688 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 880591000689 putative active site [active] 880591000690 putative metal-binding site [ion binding]; other site 880591000691 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 880591000692 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 880591000693 Walker A motif; other site 880591000694 ATP binding site [chemical binding]; other site 880591000695 Walker B motif; other site 880591000696 arginine finger; other site 880591000697 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 880591000698 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 880591000699 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 880591000700 ParB-like nuclease domain; Region: ParBc; pfam02195 880591000701 Calmodulin-binding; Region: Enkurin; pfam13864 880591000702 Methyltransferase domain; Region: Methyltransf_26; pfam13659 880591000703 DEAD-like helicases superfamily; Region: DEXDc; smart00487 880591000704 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 880591000705 ATP binding site [chemical binding]; other site 880591000706 putative Mg++ binding site [ion binding]; other site 880591000707 Helicase_C-like; Region: Helicase_C_4; pfam13871 880591000708 Toprim domain; Region: Toprim_3; pfam13362 880591000709 active site 880591000710 metal binding site [ion binding]; metal-binding site 880591000711 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 880591000712 Uncharacterized conserved protein [Function unknown]; Region: COG5489 880591000713 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 880591000714 Helix-turn-helix domain; Region: HTH_17; pfam12728 880591000715 Replication initiator protein A; Region: RPA; pfam10134 880591000716 ParA-like protein; Provisional; Region: PHA02518 880591000717 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 880591000718 P-loop; other site 880591000719 Magnesium ion binding site [ion binding]; other site 880591000720 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 880591000721 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 880591000722 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 880591000723 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; cd01494 880591000724 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880591000725 catalytic residue [active] 880591000726 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 880591000727 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 880591000728 ligand binding site [chemical binding]; other site 880591000729 NAD binding site [chemical binding]; other site 880591000730 dimerization interface [polypeptide binding]; other site 880591000731 catalytic site [active] 880591000732 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 880591000733 putative L-serine binding site [chemical binding]; other site 880591000734 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 880591000735 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 880591000736 DNA polymerase IV; Provisional; Region: PRK02794 880591000737 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 880591000738 active site 880591000739 DNA binding site [nucleotide binding] 880591000740 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 880591000741 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 880591000742 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 880591000743 active site 880591000744 dimer interface [polypeptide binding]; other site 880591000745 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 880591000746 Clp amino terminal domain; Region: Clp_N; pfam02861 880591000747 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 880591000748 Walker A motif; other site 880591000749 ATP binding site [chemical binding]; other site 880591000750 Walker B motif; other site 880591000751 arginine finger; other site 880591000752 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 880591000753 Walker A motif; other site 880591000754 ATP binding site [chemical binding]; other site 880591000755 Walker B motif; other site 880591000756 arginine finger; other site 880591000757 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 880591000758 TMAO/DMSO reductase; Reviewed; Region: PRK05363 880591000759 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 880591000760 Moco binding site; other site 880591000761 metal coordination site [ion binding]; other site 880591000762 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 880591000763 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 880591000764 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 880591000765 active site 880591000766 Rhamnan synthesis protein F; Region: RgpF; pfam05045 880591000767 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880591000768 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880591000769 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591000770 Walker A/P-loop; other site 880591000771 ATP binding site [chemical binding]; other site 880591000772 Q-loop/lid; other site 880591000773 ABC transporter signature motif; other site 880591000774 Walker B; other site 880591000775 D-loop; other site 880591000776 H-loop/switch region; other site 880591000777 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 880591000778 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 880591000779 active site 880591000780 substrate binding site [chemical binding]; other site 880591000781 metal binding site [ion binding]; metal-binding site 880591000782 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 880591000783 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 880591000784 Substrate binding site; other site 880591000785 Cupin domain; Region: Cupin_2; cl17218 880591000786 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880591000787 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 880591000788 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 880591000789 dimer interface [polypeptide binding]; other site 880591000790 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 880591000791 active site 880591000792 Fe binding site [ion binding]; other site 880591000793 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 880591000794 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 880591000795 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 880591000796 NAD(P) binding site [chemical binding]; other site 880591000797 shikimate binding site; other site 880591000798 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591000799 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591000800 DNA-binding site [nucleotide binding]; DNA binding site 880591000801 FCD domain; Region: FCD; pfam07729 880591000802 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591000803 DNA-binding site [nucleotide binding]; DNA binding site 880591000804 FCD domain; Region: FCD; pfam07729 880591000805 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 880591000806 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 880591000807 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 880591000808 DctM-like transporters; Region: DctM; pfam06808 880591000809 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 880591000810 Dehydroquinase class II; Region: DHquinase_II; pfam01220 880591000811 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 880591000812 trimer interface [polypeptide binding]; other site 880591000813 active site 880591000814 dimer interface [polypeptide binding]; other site 880591000815 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 880591000816 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 880591000817 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 880591000818 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 880591000819 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 880591000820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591000821 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 880591000822 dimerization interface [polypeptide binding]; other site 880591000823 substrate binding pocket [chemical binding]; other site 880591000824 Predicted permeases [General function prediction only]; Region: COG0679 880591000825 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 880591000826 dimer interface [polypeptide binding]; other site 880591000827 Alkaline phosphatase homologues; Region: alkPPc; smart00098 880591000828 active site 880591000829 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; cd00198 880591000830 metal ion-dependent adhesion site (MIDAS); other site 880591000831 MoxR-like ATPases [General function prediction only]; Region: COG0714 880591000832 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 880591000833 Walker A motif; other site 880591000834 ATP binding site [chemical binding]; other site 880591000835 Walker B motif; other site 880591000836 arginine finger; other site 880591000837 Protein of unknown function DUF58; Region: DUF58; pfam01882 880591000838 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 880591000839 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 880591000840 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 880591000841 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 880591000842 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 880591000843 Uncharacterized conserved protein [Function unknown]; Region: COG3339 880591000844 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 880591000845 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 880591000846 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 880591000847 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 880591000848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 880591000849 Walker A/P-loop; other site 880591000850 ATP binding site [chemical binding]; other site 880591000851 Q-loop/lid; other site 880591000852 ABC transporter signature motif; other site 880591000853 Walker B; other site 880591000854 D-loop; other site 880591000855 H-loop/switch region; other site 880591000856 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 880591000857 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 880591000858 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 880591000859 substrate binding site; other site 880591000860 tetramer interface; other site 880591000861 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 880591000862 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 880591000863 NADP binding site [chemical binding]; other site 880591000864 active site 880591000865 putative substrate binding site [chemical binding]; other site 880591000866 Hint domain; Region: Hint_2; pfam13403 880591000867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591000868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591000869 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 880591000870 dimerization interface [polypeptide binding]; other site 880591000871 FAD dependent oxidoreductase; Region: DAO; pfam01266 880591000872 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 880591000873 Creatinine amidohydrolase; Region: Creatininase; pfam02633 880591000874 Creatinine amidohydrolase; Region: Creatininase; pfam02633 880591000875 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880591000876 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591000877 Walker A/P-loop; other site 880591000878 ATP binding site [chemical binding]; other site 880591000879 Q-loop/lid; other site 880591000880 ABC transporter signature motif; other site 880591000881 Walker B; other site 880591000882 D-loop; other site 880591000883 H-loop/switch region; other site 880591000884 TOBE domain; Region: TOBE_2; pfam08402 880591000885 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 880591000886 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880591000887 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 880591000888 dimer interface [polypeptide binding]; other site 880591000889 conserved gate region; other site 880591000890 putative PBP binding loops; other site 880591000891 ABC-ATPase subunit interface; other site 880591000892 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 880591000893 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 880591000894 dimer interface [polypeptide binding]; other site 880591000895 conserved gate region; other site 880591000896 putative PBP binding loops; other site 880591000897 ABC-ATPase subunit interface; other site 880591000898 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 880591000899 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 880591000900 active site residue [active] 880591000901 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 880591000902 active site residue [active] 880591000903 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 880591000904 Sulphur transport; Region: Sulf_transp; pfam04143 880591000905 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 880591000906 Ligand binding site; other site 880591000907 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 880591000908 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 880591000909 XdhC Rossmann domain; Region: XdhC_C; pfam13478 880591000910 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 880591000911 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880591000912 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 880591000913 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880591000914 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 880591000915 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 880591000916 catalytic loop [active] 880591000917 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 880591000918 iron binding site [ion binding]; other site 880591000919 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 880591000920 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 880591000921 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 880591000922 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 880591000923 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 880591000924 active site 880591000925 homotetramer interface [polypeptide binding]; other site 880591000926 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 880591000927 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 880591000928 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 880591000929 substrate binding pocket [chemical binding]; other site 880591000930 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 880591000931 B12 binding site [chemical binding]; other site 880591000932 cobalt ligand [ion binding]; other site 880591000933 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 880591000934 ATPase MipZ; Region: MipZ; pfam09140 880591000935 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 880591000936 P-loop; other site 880591000937 Magnesium ion binding site [ion binding]; other site 880591000938 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 880591000939 Magnesium ion binding site [ion binding]; other site 880591000940 helicase 45; Provisional; Region: PTZ00424 880591000941 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 880591000942 ATP binding site [chemical binding]; other site 880591000943 Mg++ binding site [ion binding]; other site 880591000944 motif III; other site 880591000945 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 880591000946 nucleotide binding region [chemical binding]; other site 880591000947 ATP-binding site [chemical binding]; other site 880591000948 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 880591000949 putative deacylase active site [active] 880591000950 hypothetical protein; Provisional; Region: PRK02237 880591000951 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 880591000952 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 880591000953 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 880591000954 RimM N-terminal domain; Region: RimM; pfam01782 880591000955 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 880591000956 PRC-barrel domain; Region: PRC; pfam05239 880591000957 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 880591000958 chorismate mutase; Provisional; Region: PRK09239 880591000959 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880591000960 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880591000961 signal recognition particle protein; Provisional; Region: PRK10867 880591000962 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 880591000963 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 880591000964 P loop; other site 880591000965 GTP binding site [chemical binding]; other site 880591000966 Signal peptide binding domain; Region: SRP_SPB; pfam02978 880591000967 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591000968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591000969 LysR substrate binding domain; Region: LysR_substrate; pfam03466 880591000970 dimerization interface [polypeptide binding]; other site 880591000971 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 880591000972 dimerization interface [polypeptide binding]; other site 880591000973 putative DNA binding site [nucleotide binding]; other site 880591000974 putative Zn2+ binding site [ion binding]; other site 880591000975 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 880591000976 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 880591000977 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 880591000978 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 880591000979 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 880591000980 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 880591000981 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 880591000982 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 880591000983 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591000984 DNA-binding site [nucleotide binding]; DNA binding site 880591000985 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 880591000986 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880591000987 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880591000988 ligand binding site [chemical binding]; other site 880591000989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880591000990 Helix-turn-helix domain; Region: HTH_18; pfam12833 880591000991 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 880591000992 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 880591000993 DNA binding site [nucleotide binding] 880591000994 active site 880591000995 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 880591000996 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 880591000997 minor groove reading motif; other site 880591000998 helix-hairpin-helix signature motif; other site 880591000999 substrate binding pocket [chemical binding]; other site 880591001000 active site 880591001001 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 880591001002 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 880591001003 tetramer interface [polypeptide binding]; other site 880591001004 serine racemase; Region: PLN02970 880591001005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591001006 catalytic residue [active] 880591001007 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 880591001008 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 880591001009 NAD binding site [chemical binding]; other site 880591001010 homotetramer interface [polypeptide binding]; other site 880591001011 homodimer interface [polypeptide binding]; other site 880591001012 substrate binding site [chemical binding]; other site 880591001013 active site 880591001014 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 880591001015 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 880591001016 dimer interface [polypeptide binding]; other site 880591001017 active site 880591001018 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 880591001019 active site 2 [active] 880591001020 active site 1 [active] 880591001021 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 880591001022 metal binding site 2 [ion binding]; metal-binding site 880591001023 putative DNA binding helix; other site 880591001024 metal binding site 1 [ion binding]; metal-binding site 880591001025 dimer interface [polypeptide binding]; other site 880591001026 structural Zn2+ binding site [ion binding]; other site 880591001027 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 880591001028 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 880591001029 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 880591001030 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 880591001031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591001032 Walker A/P-loop; other site 880591001033 ATP binding site [chemical binding]; other site 880591001034 Q-loop/lid; other site 880591001035 ABC transporter signature motif; other site 880591001036 Walker B; other site 880591001037 D-loop; other site 880591001038 H-loop/switch region; other site 880591001039 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 880591001040 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 880591001041 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880591001042 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880591001043 MAPEG family; Region: MAPEG; cl09190 880591001044 potential frameshift: common BLAST hit: gi|119383306|ref|YP_914362.1| dihydrolipoamide acetyltransferase 880591001045 e3 binding domain; Region: E3_binding; pfam02817 880591001046 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 880591001047 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 880591001048 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 880591001049 E3 interaction surface; other site 880591001050 lipoyl attachment site [posttranslational modification]; other site 880591001051 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 880591001052 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 880591001053 TPP-binding site [chemical binding]; other site 880591001054 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 880591001055 dimer interface [polypeptide binding]; other site 880591001056 PYR/PP interface [polypeptide binding]; other site 880591001057 TPP binding site [chemical binding]; other site 880591001058 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 880591001059 CoA binding domain; Region: CoA_binding; pfam02629 880591001060 CoA-ligase; Region: Ligase_CoA; pfam00549 880591001061 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 880591001062 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 880591001063 CoA-ligase; Region: Ligase_CoA; pfam00549 880591001064 malate dehydrogenase; Reviewed; Region: PRK06223 880591001065 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 880591001066 NAD(P) binding site [chemical binding]; other site 880591001067 dimer interface [polypeptide binding]; other site 880591001068 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880591001069 substrate binding site [chemical binding]; other site 880591001070 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 880591001071 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 880591001072 Iron-sulfur protein interface; other site 880591001073 proximal quinone binding site [chemical binding]; other site 880591001074 SdhD (CybS) interface [polypeptide binding]; other site 880591001075 proximal heme binding site [chemical binding]; other site 880591001076 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 880591001077 proximal heme binding site [chemical binding]; other site 880591001078 Iron-sulfur protein interface; other site 880591001079 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 880591001080 L-aspartate oxidase; Provisional; Region: PRK06175 880591001081 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 880591001082 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 880591001083 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 880591001084 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 880591001085 putative FMN binding site [chemical binding]; other site 880591001086 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 880591001087 Hint domain; Region: Hint_2; pfam13403 880591001088 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 880591001089 Hint domain; Region: Hint_2; pfam13403 880591001090 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 880591001091 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 880591001092 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 880591001093 S-adenosylmethionine binding site [chemical binding]; other site 880591001094 Hint domain; Region: Hint_2; pfam13403 880591001095 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 880591001096 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880591001097 UDP-galactopyranose mutase; Region: GLF; pfam03275 880591001098 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 880591001099 putative active site [active] 880591001100 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 880591001101 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 880591001102 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 880591001103 NMT1/THI5 like; Region: NMT1; pfam09084 880591001104 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591001105 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591001106 Walker A/P-loop; other site 880591001107 ATP binding site [chemical binding]; other site 880591001108 Q-loop/lid; other site 880591001109 ABC transporter signature motif; other site 880591001110 Walker B; other site 880591001111 D-loop; other site 880591001112 H-loop/switch region; other site 880591001113 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591001114 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 880591001115 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591001116 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 880591001117 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 880591001118 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 880591001119 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 880591001120 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591001121 putative substrate translocation pore; other site 880591001122 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880591001123 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 880591001124 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 880591001125 active site 880591001126 phosphorylation site [posttranslational modification] 880591001127 intermolecular recognition site; other site 880591001128 dimerization interface [polypeptide binding]; other site 880591001129 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 880591001130 DNA binding site [nucleotide binding] 880591001131 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 880591001132 PhoU domain; Region: PhoU; pfam01895 880591001133 PhoU domain; Region: PhoU; pfam01895 880591001134 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 880591001135 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 880591001136 Walker A/P-loop; other site 880591001137 ATP binding site [chemical binding]; other site 880591001138 Q-loop/lid; other site 880591001139 ABC transporter signature motif; other site 880591001140 Walker B; other site 880591001141 D-loop; other site 880591001142 H-loop/switch region; other site 880591001143 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 880591001144 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 880591001145 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 880591001146 dimer interface [polypeptide binding]; other site 880591001147 conserved gate region; other site 880591001148 putative PBP binding loops; other site 880591001149 ABC-ATPase subunit interface; other site 880591001150 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 880591001151 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 880591001152 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 880591001153 dimer interface [polypeptide binding]; other site 880591001154 conserved gate region; other site 880591001155 putative PBP binding loops; other site 880591001156 ABC-ATPase subunit interface; other site 880591001157 PBP superfamily domain; Region: PBP_like_2; pfam12849 880591001158 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 880591001159 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880591001160 Walker A/P-loop; other site 880591001161 ATP binding site [chemical binding]; other site 880591001162 Q-loop/lid; other site 880591001163 ABC transporter signature motif; other site 880591001164 Walker B; other site 880591001165 D-loop; other site 880591001166 H-loop/switch region; other site 880591001167 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 880591001168 ABC-ATPase subunit interface; other site 880591001169 dimer interface [polypeptide binding]; other site 880591001170 putative PBP binding regions; other site 880591001171 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 880591001172 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 880591001173 intersubunit interface [polypeptide binding]; other site 880591001174 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 880591001175 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 880591001176 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 880591001177 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 880591001178 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 880591001179 G1 box; other site 880591001180 putative GEF interaction site [polypeptide binding]; other site 880591001181 GTP/Mg2+ binding site [chemical binding]; other site 880591001182 Switch I region; other site 880591001183 G2 box; other site 880591001184 G3 box; other site 880591001185 Switch II region; other site 880591001186 G4 box; other site 880591001187 G5 box; other site 880591001188 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 880591001189 Hint domain; Region: Hint_2; pfam13403 880591001190 HTH domain; Region: HTH_11; pfam08279 880591001191 WYL domain; Region: WYL; pfam13280 880591001192 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 880591001193 sec-independent translocase; Provisional; Region: PRK00708 880591001194 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 880591001195 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 880591001196 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 880591001197 Walker A motif; other site 880591001198 ATP binding site [chemical binding]; other site 880591001199 Walker B motif; other site 880591001200 Domain of unknown function DUF; Region: DUF204; pfam02659 880591001201 Domain of unknown function DUF; Region: DUF204; pfam02659 880591001202 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 880591001203 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 880591001204 Core-2/I-Branching enzyme; Region: Branch; pfam02485 880591001205 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 880591001206 nucleotide binding site/active site [active] 880591001207 HIT family signature motif; other site 880591001208 catalytic residue [active] 880591001209 Zinc-finger domain; Region: zf-CHCC; pfam10276 880591001210 potential frameshift: common BLAST hit: gi|110677750|ref|YP_680757.1| DNA polymerase I 880591001211 5'-3' exonuclease; Region: 53EXOc; smart00475 880591001212 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 880591001213 active site 880591001214 metal binding site 1 [ion binding]; metal-binding site 880591001215 putative 5' ssDNA interaction site; other site 880591001216 metal binding site 3; metal-binding site 880591001217 metal binding site 2 [ion binding]; metal-binding site 880591001218 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 880591001219 putative DNA binding site [nucleotide binding]; other site 880591001220 putative metal binding site [ion binding]; other site 880591001221 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 880591001222 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 880591001223 active site 880591001224 catalytic site [active] 880591001225 substrate binding site [chemical binding]; other site 880591001226 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 880591001227 active site 880591001228 DNA binding site [nucleotide binding] 880591001229 catalytic site [active] 880591001230 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 880591001231 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591001232 Coenzyme A binding pocket [chemical binding]; other site 880591001233 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 880591001234 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 880591001235 putative dimer interface [polypeptide binding]; other site 880591001236 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 880591001237 Protein of unknown function, DUF599; Region: DUF599; pfam04654 880591001238 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 880591001239 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 880591001240 Protein of unknown function DUF58; Region: DUF58; pfam01882 880591001241 MoxR-like ATPases [General function prediction only]; Region: COG0714 880591001242 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 880591001243 ATP binding site [chemical binding]; other site 880591001244 Walker B motif; other site 880591001245 arginine finger; other site 880591001246 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 880591001247 metal binding triad; other site 880591001248 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 880591001249 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 880591001250 putative RNA binding site [nucleotide binding]; other site 880591001251 PIN domain; Region: PIN_3; pfam13470 880591001252 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 880591001253 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 880591001254 salicylate hydroxylase; Provisional; Region: PRK08163 880591001255 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880591001256 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 880591001257 putative catalytic site [active] 880591001258 putative phosphate binding site [ion binding]; other site 880591001259 active site 880591001260 metal binding site A [ion binding]; metal-binding site 880591001261 DNA binding site [nucleotide binding] 880591001262 putative AP binding site [nucleotide binding]; other site 880591001263 putative metal binding site B [ion binding]; other site 880591001264 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 880591001265 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 880591001266 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880591001267 Zn2+ binding site [ion binding]; other site 880591001268 Mg2+ binding site [ion binding]; other site 880591001269 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 880591001270 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880591001271 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 880591001272 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 880591001273 pyruvate kinase; Provisional; Region: PRK06247 880591001274 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 880591001275 domain interfaces; other site 880591001276 active site 880591001277 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 880591001278 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 880591001279 23S rRNA binding site [nucleotide binding]; other site 880591001280 L21 binding site [polypeptide binding]; other site 880591001281 L13 binding site [polypeptide binding]; other site 880591001282 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 880591001283 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 880591001284 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 880591001285 dimer interface [polypeptide binding]; other site 880591001286 motif 1; other site 880591001287 active site 880591001288 motif 2; other site 880591001289 motif 3; other site 880591001290 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 880591001291 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 880591001292 putative tRNA-binding site [nucleotide binding]; other site 880591001293 B3/4 domain; Region: B3_4; pfam03483 880591001294 tRNA synthetase B5 domain; Region: B5; smart00874 880591001295 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 880591001296 dimer interface [polypeptide binding]; other site 880591001297 motif 1; other site 880591001298 motif 3; other site 880591001299 motif 2; other site 880591001300 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 880591001301 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 880591001302 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 880591001303 C-terminal domain interface [polypeptide binding]; other site 880591001304 GSH binding site (G-site) [chemical binding]; other site 880591001305 dimer interface [polypeptide binding]; other site 880591001306 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 880591001307 dimer interface [polypeptide binding]; other site 880591001308 N-terminal domain interface [polypeptide binding]; other site 880591001309 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 880591001310 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 880591001311 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880591001312 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 880591001313 putative DNA binding site [nucleotide binding]; other site 880591001314 putative Zn2+ binding site [ion binding]; other site 880591001315 AsnC family; Region: AsnC_trans_reg; pfam01037 880591001316 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 880591001317 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 880591001318 COQ9; Region: COQ9; pfam08511 880591001319 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 880591001320 Ligand binding site [chemical binding]; other site 880591001321 Electron transfer flavoprotein domain; Region: ETF; pfam01012 880591001322 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 880591001323 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 880591001324 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 880591001325 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 880591001326 dimerization domain swap beta strand [polypeptide binding]; other site 880591001327 regulatory protein interface [polypeptide binding]; other site 880591001328 active site 880591001329 regulatory phosphorylation site [posttranslational modification]; other site 880591001330 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; cl00025 880591001331 active pocket/dimerization site; other site 880591001332 active site 880591001333 phosphorylation site [posttranslational modification] 880591001334 AAA domain; Region: AAA_33; pfam13671 880591001335 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 880591001336 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cd00133 880591001337 active site 880591001338 P-loop; other site 880591001339 phosphorylation site [posttranslational modification] 880591001340 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 880591001341 Hpr binding site; other site 880591001342 active site 880591001343 homohexamer subunit interaction site [polypeptide binding]; other site 880591001344 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 880591001345 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_ATP; cd00484 880591001346 active site 880591001347 substrate-binding site [chemical binding]; other site 880591001348 metal-binding site [ion binding] 880591001349 ATP binding site [chemical binding]; other site 880591001350 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 880591001351 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 880591001352 B1 nucleotide binding pocket [chemical binding]; other site 880591001353 B2 nucleotide binding pocket [chemical binding]; other site 880591001354 CAS motifs; other site 880591001355 active site 880591001356 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 880591001357 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 880591001358 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880591001359 Ligand binding site; other site 880591001360 DXD motif; other site 880591001361 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 880591001362 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 880591001363 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 880591001364 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591001365 Coenzyme A binding pocket [chemical binding]; other site 880591001366 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 880591001367 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 880591001368 dimer interface [polypeptide binding]; other site 880591001369 anticodon binding site; other site 880591001370 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 880591001371 motif 1; other site 880591001372 dimer interface [polypeptide binding]; other site 880591001373 active site 880591001374 motif 2; other site 880591001375 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 880591001376 active site 880591001377 motif 3; other site 880591001378 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 880591001379 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 880591001380 putative FMN binding site [chemical binding]; other site 880591001381 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 880591001382 Peptidase family M48; Region: Peptidase_M48; cl12018 880591001383 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 880591001384 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 880591001385 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 880591001386 FeS/SAM binding site; other site 880591001387 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 880591001388 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 880591001389 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 880591001390 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 880591001391 putative ligand binding site [chemical binding]; other site 880591001392 Predicted methyltransferases [General function prediction only]; Region: COG0313 880591001393 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 880591001394 putative SAM binding site [chemical binding]; other site 880591001395 putative homodimer interface [polypeptide binding]; other site 880591001396 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 880591001397 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 880591001398 glutathione synthetase; Provisional; Region: PRK05246 880591001399 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 880591001400 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 880591001401 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 880591001402 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 880591001403 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 880591001404 Walker A motif; other site 880591001405 ATP binding site [chemical binding]; other site 880591001406 Walker B motif; other site 880591001407 arginine finger; other site 880591001408 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 880591001409 Predicted membrane protein [Function unknown]; Region: COG4420 880591001410 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 880591001411 Flavoprotein; Region: Flavoprotein; pfam02441 880591001412 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 880591001413 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 880591001414 trimer interface [polypeptide binding]; other site 880591001415 active site 880591001416 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 880591001417 ATP binding site [chemical binding]; other site 880591001418 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; cl17196 880591001419 substrate interface [chemical binding]; other site 880591001420 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 880591001421 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 880591001422 active site 880591001423 Zn binding site [ion binding]; other site 880591001424 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 880591001425 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 880591001426 dimer interface [polypeptide binding]; other site 880591001427 conserved gate region; other site 880591001428 putative PBP binding loops; other site 880591001429 ABC-ATPase subunit interface; other site 880591001430 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 880591001431 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 880591001432 substrate binding pocket [chemical binding]; other site 880591001433 membrane-bound complex binding site; other site 880591001434 hinge residues; other site 880591001435 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 880591001436 Cation efflux family; Region: Cation_efflux; cl00316 880591001437 Bacterial SH3 domain; Region: SH3_4; pfam06347 880591001438 Bacterial SH3 domain; Region: SH3_4; pfam06347 880591001439 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 880591001440 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 880591001441 putative ligand binding site [chemical binding]; other site 880591001442 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4603 880591001443 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 880591001444 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 880591001445 Walker A/P-loop; other site 880591001446 ATP binding site [chemical binding]; other site 880591001447 Q-loop/lid; other site 880591001448 ABC transporter signature motif; other site 880591001449 Walker B; other site 880591001450 D-loop; other site 880591001451 H-loop/switch region; other site 880591001452 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 880591001453 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 880591001454 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 880591001455 XdhC Rossmann domain; Region: XdhC_C; pfam13478 880591001456 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 880591001457 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 880591001458 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 880591001459 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 880591001460 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 880591001461 catalytic loop [active] 880591001462 iron binding site [ion binding]; other site 880591001463 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 880591001464 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 880591001465 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_19; cd08518 880591001466 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591001467 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591001468 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 880591001469 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591001470 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 880591001471 dimer interface [polypeptide binding]; other site 880591001472 conserved gate region; other site 880591001473 putative PBP binding loops; other site 880591001474 ABC-ATPase subunit interface; other site 880591001475 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591001476 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 880591001477 dimer interface [polypeptide binding]; other site 880591001478 conserved gate region; other site 880591001479 putative PBP binding loops; other site 880591001480 ABC-ATPase subunit interface; other site 880591001481 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591001482 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591001483 Walker A/P-loop; other site 880591001484 ATP binding site [chemical binding]; other site 880591001485 Q-loop/lid; other site 880591001486 ABC transporter signature motif; other site 880591001487 Walker B; other site 880591001488 D-loop; other site 880591001489 H-loop/switch region; other site 880591001490 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591001491 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591001492 Walker A/P-loop; other site 880591001493 ATP binding site [chemical binding]; other site 880591001494 Q-loop/lid; other site 880591001495 ABC transporter signature motif; other site 880591001496 Walker B; other site 880591001497 D-loop; other site 880591001498 H-loop/switch region; other site 880591001499 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 880591001500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591001501 DNA-binding site [nucleotide binding]; DNA binding site 880591001502 UTRA domain; Region: UTRA; pfam07702 880591001503 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591001504 Coenzyme A binding pocket [chemical binding]; other site 880591001505 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 880591001506 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 880591001507 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 880591001508 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591001509 substrate binding site [chemical binding]; other site 880591001510 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591001511 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 880591001512 dimer interface [polypeptide binding]; other site 880591001513 conserved gate region; other site 880591001514 putative PBP binding loops; other site 880591001515 ABC-ATPase subunit interface; other site 880591001516 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 880591001517 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591001518 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 880591001519 putative PBP binding loops; other site 880591001520 ABC-ATPase subunit interface; other site 880591001521 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591001522 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591001523 Walker A/P-loop; other site 880591001524 ATP binding site [chemical binding]; other site 880591001525 Q-loop/lid; other site 880591001526 ABC transporter signature motif; other site 880591001527 Walker B; other site 880591001528 D-loop; other site 880591001529 H-loop/switch region; other site 880591001530 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591001531 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880591001532 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591001533 Walker A/P-loop; other site 880591001534 ATP binding site [chemical binding]; other site 880591001535 Q-loop/lid; other site 880591001536 ABC transporter signature motif; other site 880591001537 Walker B; other site 880591001538 D-loop; other site 880591001539 H-loop/switch region; other site 880591001540 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591001541 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880591001542 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 880591001543 dimer interface [polypeptide binding]; other site 880591001544 active site 880591001545 metal binding site [ion binding]; metal-binding site 880591001546 glutathione binding site [chemical binding]; other site 880591001547 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 880591001548 S-formylglutathione hydrolase; Region: PLN02442 880591001549 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 880591001550 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 880591001551 substrate binding site [chemical binding]; other site 880591001552 catalytic Zn binding site [ion binding]; other site 880591001553 NAD binding site [chemical binding]; other site 880591001554 structural Zn binding site [ion binding]; other site 880591001555 dimer interface [polypeptide binding]; other site 880591001556 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 880591001557 putative homodimer interface [polypeptide binding]; other site 880591001558 putative homotetramer interface [polypeptide binding]; other site 880591001559 putative metal binding site [ion binding]; other site 880591001560 putative homodimer-homodimer interface [polypeptide binding]; other site 880591001561 putative allosteric switch controlling residues; other site 880591001562 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591001563 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591001564 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 880591001565 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 880591001566 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 880591001567 putative NAD(P) binding site [chemical binding]; other site 880591001568 putative dimer interface [polypeptide binding]; other site 880591001569 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 880591001570 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 880591001571 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 880591001572 Domain of unknown function (DUF336); Region: DUF336; pfam03928 880591001573 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 880591001574 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 880591001575 active site 880591001576 substrate binding site [chemical binding]; other site 880591001577 FMN binding site [chemical binding]; other site 880591001578 putative catalytic residues [active] 880591001579 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591001580 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591001581 Walker A/P-loop; other site 880591001582 ATP binding site [chemical binding]; other site 880591001583 Q-loop/lid; other site 880591001584 ABC transporter signature motif; other site 880591001585 Walker B; other site 880591001586 D-loop; other site 880591001587 H-loop/switch region; other site 880591001588 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591001589 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591001590 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591001591 Walker A/P-loop; other site 880591001592 ATP binding site [chemical binding]; other site 880591001593 Q-loop/lid; other site 880591001594 ABC transporter signature motif; other site 880591001595 Walker B; other site 880591001596 D-loop; other site 880591001597 H-loop/switch region; other site 880591001598 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591001599 dipeptide transporter; Provisional; Region: PRK10913 880591001600 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 880591001601 putative PBP binding loops; other site 880591001602 dimer interface [polypeptide binding]; other site 880591001603 ABC-ATPase subunit interface; other site 880591001604 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591001605 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 880591001606 dimer interface [polypeptide binding]; other site 880591001607 conserved gate region; other site 880591001608 putative PBP binding loops; other site 880591001609 ABC-ATPase subunit interface; other site 880591001610 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 880591001611 homotrimer interaction site [polypeptide binding]; other site 880591001612 putative active site [active] 880591001613 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880591001614 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 880591001615 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 880591001616 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591001617 peptide binding site [polypeptide binding]; other site 880591001618 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591001619 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591001620 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 880591001621 dimerization interface [polypeptide binding]; other site 880591001622 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591001623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591001624 DNA-binding site [nucleotide binding]; DNA binding site 880591001625 FCD domain; Region: FCD; pfam07729 880591001626 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 880591001627 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 880591001628 NADP binding site [chemical binding]; other site 880591001629 homodimer interface [polypeptide binding]; other site 880591001630 active site 880591001631 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 880591001632 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 880591001633 dimer interface [polypeptide binding]; other site 880591001634 conserved gate region; other site 880591001635 putative PBP binding loops; other site 880591001636 ABC-ATPase subunit interface; other site 880591001637 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 880591001638 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 880591001639 dimer interface [polypeptide binding]; other site 880591001640 conserved gate region; other site 880591001641 putative PBP binding loops; other site 880591001642 ABC-ATPase subunit interface; other site 880591001643 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 880591001644 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 880591001645 Walker A/P-loop; other site 880591001646 ATP binding site [chemical binding]; other site 880591001647 Q-loop/lid; other site 880591001648 ABC transporter signature motif; other site 880591001649 Walker B; other site 880591001650 D-loop; other site 880591001651 H-loop/switch region; other site 880591001652 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 880591001653 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 880591001654 substrate binding pocket [chemical binding]; other site 880591001655 membrane-bound complex binding site; other site 880591001656 hinge residues; other site 880591001657 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 880591001658 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 880591001659 NAD(P) binding site [chemical binding]; other site 880591001660 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 880591001661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591001662 Coenzyme A binding pocket [chemical binding]; other site 880591001663 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 880591001664 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 880591001665 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 880591001666 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 880591001667 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 880591001668 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 880591001669 FeS/SAM binding site; other site 880591001670 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 880591001671 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591001672 putative substrate translocation pore; other site 880591001673 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 880591001674 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 880591001675 TPP-binding site; other site 880591001676 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 880591001677 PYR/PP interface [polypeptide binding]; other site 880591001678 dimer interface [polypeptide binding]; other site 880591001679 TPP binding site [chemical binding]; other site 880591001680 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880591001681 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 880591001682 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 880591001683 substrate binding pocket [chemical binding]; other site 880591001684 substrate-Mg2+ binding site; other site 880591001685 aspartate-rich region 1; other site 880591001686 aspartate-rich region 2; other site 880591001687 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 880591001688 Uncharacterized conserved protein [Function unknown]; Region: COG2835 880591001689 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 880591001690 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 880591001691 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 880591001692 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 880591001693 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 880591001694 PAS domain; Region: PAS_9; pfam13426 880591001695 putative active site [active] 880591001696 heme pocket [chemical binding]; other site 880591001697 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 880591001698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 880591001699 metal binding site [ion binding]; metal-binding site 880591001700 active site 880591001701 I-site; other site 880591001702 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 880591001703 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 880591001704 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 880591001705 Cu(I) binding site [ion binding]; other site 880591001706 Protein of unknown function (DUF461); Region: DUF461; pfam04314 880591001707 Protein of unknown function (DUF461); Region: DUF461; pfam04314 880591001708 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 880591001709 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 880591001710 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880591001711 Cytochrome c; Region: Cytochrom_C; pfam00034 880591001712 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880591001713 Cytochrome c; Region: Cytochrom_C; pfam00034 880591001714 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 880591001715 Predicted acetyltransferase [General function prediction only]; Region: COG3153 880591001716 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 880591001717 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 880591001718 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 880591001719 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 880591001720 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 880591001721 aspartate kinase; Reviewed; Region: PRK06635 880591001722 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 880591001723 putative nucleotide binding site [chemical binding]; other site 880591001724 putative catalytic residues [active] 880591001725 putative Mg ion binding site [ion binding]; other site 880591001726 putative aspartate binding site [chemical binding]; other site 880591001727 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 880591001728 putative allosteric regulatory site; other site 880591001729 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 880591001730 putative allosteric regulatory residue; other site 880591001731 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 880591001732 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 880591001733 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 880591001734 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 880591001735 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 880591001736 dimerization interface [polypeptide binding]; other site 880591001737 putative active cleft [active] 880591001738 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 880591001739 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880591001740 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880591001741 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880591001742 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880591001743 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591001744 Walker A/P-loop; other site 880591001745 ATP binding site [chemical binding]; other site 880591001746 Q-loop/lid; other site 880591001747 ABC transporter signature motif; other site 880591001748 Walker B; other site 880591001749 D-loop; other site 880591001750 H-loop/switch region; other site 880591001751 Hint domain; Region: Hint_2; pfam13403 880591001752 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 880591001753 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 880591001754 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 880591001755 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 880591001756 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 880591001757 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 880591001758 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591001759 Walker A/P-loop; other site 880591001760 ATP binding site [chemical binding]; other site 880591001761 Q-loop/lid; other site 880591001762 ABC transporter signature motif; other site 880591001763 Walker B; other site 880591001764 D-loop; other site 880591001765 H-loop/switch region; other site 880591001766 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 880591001767 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 880591001768 Walker A/P-loop; other site 880591001769 ATP binding site [chemical binding]; other site 880591001770 Q-loop/lid; other site 880591001771 ABC transporter signature motif; other site 880591001772 Walker B; other site 880591001773 D-loop; other site 880591001774 H-loop/switch region; other site 880591001775 Putative phosphatase (DUF442); Region: DUF442; cl17385 880591001776 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591001777 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880591001778 putative substrate translocation pore; other site 880591001779 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 880591001780 dimerization interface [polypeptide binding]; other site 880591001781 putative DNA binding site [nucleotide binding]; other site 880591001782 putative Zn2+ binding site [ion binding]; other site 880591001783 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 880591001784 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 880591001785 DNA binding residues [nucleotide binding] 880591001786 dimer interface [polypeptide binding]; other site 880591001787 copper binding site [ion binding]; other site 880591001788 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 880591001789 metal-binding site [ion binding] 880591001790 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 880591001791 Uncharacterized conserved protein [Function unknown]; Region: COG4121 880591001792 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880591001793 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880591001794 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 880591001795 MPT binding site; other site 880591001796 trimer interface [polypeptide binding]; other site 880591001797 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 880591001798 Fe-S cluster binding site [ion binding]; other site 880591001799 active site 880591001800 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 880591001801 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 880591001802 homodimer interface [polypeptide binding]; other site 880591001803 substrate-cofactor binding pocket; other site 880591001804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591001805 catalytic residue [active] 880591001806 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 880591001807 N-formylglutamate amidohydrolase; Region: FGase; cl01522 880591001808 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880591001809 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 880591001810 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 880591001811 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 880591001812 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 880591001813 dimerization interface [polypeptide binding]; other site 880591001814 putative DNA binding site [nucleotide binding]; other site 880591001815 putative Zn2+ binding site [ion binding]; other site 880591001816 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 880591001817 HI0933-like protein; Region: HI0933_like; pfam03486 880591001818 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880591001819 cell division protein FtsW; Region: ftsW; TIGR02614 880591001820 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 880591001821 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 880591001822 active site 880591001823 homodimer interface [polypeptide binding]; other site 880591001824 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 880591001825 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880591001826 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880591001827 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880591001828 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 880591001829 FAD binding domain; Region: FAD_binding_4; pfam01565 880591001830 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 880591001831 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 880591001832 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 880591001833 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880591001834 Cell division protein FtsQ; Region: FtsQ; pfam03799 880591001835 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 880591001836 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 880591001837 nucleotide binding site [chemical binding]; other site 880591001838 SulA interaction site; other site 880591001839 Type III secretion protein (HpaP); Region: HpaP; cl17849 880591001840 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 880591001841 Outer membrane lipoprotein; Region: YfiO; pfam13525 880591001842 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 880591001843 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 880591001844 Walker A/P-loop; other site 880591001845 ATP binding site [chemical binding]; other site 880591001846 Q-loop/lid; other site 880591001847 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 880591001848 ABC transporter signature motif; other site 880591001849 Walker B; other site 880591001850 D-loop; other site 880591001851 H-loop/switch region; other site 880591001852 potential frameshift: common BLAST hit: gi|159046093|ref|YP_001534887.1| acetyl-coenzyme A synthetase 880591001853 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 880591001854 active site 880591001855 CoA binding site [chemical binding]; other site 880591001856 AMP binding site [chemical binding]; other site 880591001857 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 880591001858 acyl-activating enzyme (AAE) consensus motif; other site 880591001859 pyruvate carboxylase; Reviewed; Region: PRK12999 880591001860 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880591001861 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880591001862 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 880591001863 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 880591001864 active site 880591001865 catalytic residues [active] 880591001866 metal binding site [ion binding]; metal-binding site 880591001867 homodimer binding site [polypeptide binding]; other site 880591001868 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 880591001869 carboxyltransferase (CT) interaction site; other site 880591001870 biotinylation site [posttranslational modification]; other site 880591001871 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 880591001872 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 880591001873 benzoate transporter; Region: benE; TIGR00843 880591001874 Domain of unknown function DUF59; Region: DUF59; pfam01883 880591001875 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 880591001876 cell division protein MraZ; Reviewed; Region: PRK00326 880591001877 MraZ protein; Region: MraZ; pfam02381 880591001878 MraZ protein; Region: MraZ; pfam02381 880591001879 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 880591001880 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 880591001881 S-adenosylmethionine binding site [chemical binding]; other site 880591001882 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 880591001883 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 880591001884 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 880591001885 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 880591001886 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 880591001887 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880591001888 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880591001889 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880591001890 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 880591001891 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 880591001892 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880591001893 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 880591001894 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 880591001895 Mg++ binding site [ion binding]; other site 880591001896 putative catalytic motif [active] 880591001897 putative substrate binding site [chemical binding]; other site 880591001898 LrgA family; Region: LrgA; pfam03788 880591001899 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 880591001900 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 880591001901 active site 880591001902 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 880591001903 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 880591001904 substrate binding pocket [chemical binding]; other site 880591001905 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 880591001906 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 880591001907 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880591001908 Peptidase family M23; Region: Peptidase_M23; pfam01551 880591001909 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 880591001910 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 880591001911 catalytic triad [active] 880591001912 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 880591001913 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 880591001914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591001915 putative substrate translocation pore; other site 880591001916 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880591001917 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 880591001918 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880591001919 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880591001920 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 880591001921 Uncharacterized conserved protein [Function unknown]; Region: COG3791 880591001922 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 880591001923 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880591001924 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 880591001925 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 880591001926 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 880591001927 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 880591001928 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 880591001929 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880591001930 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880591001931 GTPase CgtA; Reviewed; Region: obgE; PRK12299 880591001932 GTP1/OBG; Region: GTP1_OBG; pfam01018 880591001933 Obg GTPase; Region: Obg; cd01898 880591001934 G1 box; other site 880591001935 GTP/Mg2+ binding site [chemical binding]; other site 880591001936 Switch I region; other site 880591001937 G2 box; other site 880591001938 G3 box; other site 880591001939 Switch II region; other site 880591001940 G4 box; other site 880591001941 G5 box; other site 880591001942 gamma-glutamyl kinase; Provisional; Region: PRK05429 880591001943 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 880591001944 nucleotide binding site [chemical binding]; other site 880591001945 homotetrameric interface [polypeptide binding]; other site 880591001946 putative phosphate binding site [ion binding]; other site 880591001947 putative allosteric binding site; other site 880591001948 PUA domain; Region: PUA; pfam01472 880591001949 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 880591001950 putative catalytic cysteine [active] 880591001951 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591001952 DNA-binding site [nucleotide binding]; DNA binding site 880591001953 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 880591001954 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880591001955 Walker A/P-loop; other site 880591001956 ATP binding site [chemical binding]; other site 880591001957 Q-loop/lid; other site 880591001958 ABC transporter signature motif; other site 880591001959 Walker B; other site 880591001960 D-loop; other site 880591001961 H-loop/switch region; other site 880591001962 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 880591001963 putative PBP binding regions; other site 880591001964 ABC-ATPase subunit interface; other site 880591001965 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 880591001966 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880591001967 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 880591001968 ABC-ATPase subunit interface; other site 880591001969 putative PBP binding regions; other site 880591001970 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 880591001971 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 880591001972 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 880591001973 siderophore binding site; other site 880591001974 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 880591001975 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 880591001976 siderophore binding site; other site 880591001977 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 880591001978 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 880591001979 intersubunit interface [polypeptide binding]; other site 880591001980 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 880591001981 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 880591001982 intersubunit interface [polypeptide binding]; other site 880591001983 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 880591001984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591001985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591001986 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 880591001987 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591001988 putative substrate translocation pore; other site 880591001989 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 880591001990 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 880591001991 Uncharacterized conserved protein [Function unknown]; Region: COG4544 880591001992 DNA Polymerase Y-family; Region: PolY_like; cd03468 880591001993 DNA binding site [nucleotide binding] 880591001994 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 880591001995 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 880591001996 putative active site [active] 880591001997 putative PHP Thumb interface [polypeptide binding]; other site 880591001998 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 880591001999 generic binding surface II; other site 880591002000 generic binding surface I; other site 880591002001 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 880591002002 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880591002003 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 880591002004 Flagellar protein FlaF; Region: FlaF; cl11454 880591002005 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880591002006 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880591002007 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 880591002008 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 880591002009 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 880591002010 Metal-binding active site; metal-binding site 880591002011 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 880591002012 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591002013 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591002014 DNA binding site [nucleotide binding] 880591002015 domain linker motif; other site 880591002016 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 880591002017 dimerization interface [polypeptide binding]; other site 880591002018 ligand binding site [chemical binding]; other site 880591002019 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591002020 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 880591002021 TM-ABC transporter signature motif; other site 880591002022 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591002023 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 880591002024 TM-ABC transporter signature motif; other site 880591002025 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 880591002026 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 880591002027 Walker A/P-loop; other site 880591002028 ATP binding site [chemical binding]; other site 880591002029 Q-loop/lid; other site 880591002030 ABC transporter signature motif; other site 880591002031 Walker B; other site 880591002032 D-loop; other site 880591002033 H-loop/switch region; other site 880591002034 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 880591002035 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 880591002036 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 880591002037 putative ligand binding site [chemical binding]; other site 880591002038 Predicted membrane protein [Function unknown]; Region: COG2259 880591002039 GTP-binding protein YchF; Reviewed; Region: PRK09601 880591002040 YchF GTPase; Region: YchF; cd01900 880591002041 G1 box; other site 880591002042 GTP/Mg2+ binding site [chemical binding]; other site 880591002043 Switch I region; other site 880591002044 G2 box; other site 880591002045 Switch II region; other site 880591002046 G3 box; other site 880591002047 G4 box; other site 880591002048 G5 box; other site 880591002049 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 880591002050 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 880591002051 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880591002052 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880591002053 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 880591002054 Ligand Binding Site [chemical binding]; other site 880591002055 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 880591002056 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 880591002057 ligand binding site [chemical binding]; other site 880591002058 flexible hinge region; other site 880591002059 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 880591002060 putative switch regulator; other site 880591002061 non-specific DNA interactions [nucleotide binding]; other site 880591002062 DNA binding site [nucleotide binding] 880591002063 sequence specific DNA binding site [nucleotide binding]; other site 880591002064 putative cAMP binding site [chemical binding]; other site 880591002065 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 880591002066 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591002067 putative substrate translocation pore; other site 880591002068 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880591002069 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 880591002070 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 880591002071 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 880591002072 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 880591002073 active site clefts [active] 880591002074 zinc binding site [ion binding]; other site 880591002075 dimer interface [polypeptide binding]; other site 880591002076 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 880591002077 interface (dimer of trimers) [polypeptide binding]; other site 880591002078 Substrate-binding/catalytic site; other site 880591002079 Zn-binding sites [ion binding]; other site 880591002080 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 880591002081 NlpC/P60 family; Region: NLPC_P60; cl17555 880591002082 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 880591002083 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 880591002084 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 880591002085 diiron binding motif [ion binding]; other site 880591002086 Uncharacterized conserved protein [Function unknown]; Region: COG1633 880591002087 CCC1-related protein family; Region: CCC1_like_1; cd02437 880591002088 Predicted permeases [General function prediction only]; Region: COG0679 880591002089 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 880591002090 Predicted ATPase [General function prediction only]; Region: COG1485 880591002091 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880591002092 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880591002093 active site 880591002094 metal binding site [ion binding]; metal-binding site 880591002095 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 880591002096 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 880591002097 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 880591002098 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 880591002099 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 880591002100 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 880591002101 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 880591002102 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 880591002103 putative active site [active] 880591002104 catalytic site [active] 880591002105 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 880591002106 putative active site [active] 880591002107 catalytic site [active] 880591002108 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 880591002109 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 880591002110 active site 880591002111 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 880591002112 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 880591002113 putative MPT binding site; other site 880591002114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591002115 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 880591002116 Coenzyme A binding pocket [chemical binding]; other site 880591002117 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880591002118 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880591002119 ligand binding site [chemical binding]; other site 880591002120 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 880591002121 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 880591002122 S-adenosylmethionine binding site [chemical binding]; other site 880591002123 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 880591002124 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880591002125 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880591002126 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 880591002127 catalytic triad [active] 880591002128 dimer interface [polypeptide binding]; other site 880591002129 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 880591002130 aromatic arch; other site 880591002131 DCoH dimer interaction site [polypeptide binding]; other site 880591002132 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 880591002133 DCoH tetramer interaction site [polypeptide binding]; other site 880591002134 substrate binding site [chemical binding]; other site 880591002135 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 880591002136 Protein of unknown function, DUF482; Region: DUF482; pfam04339 880591002137 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 880591002138 homotrimer interaction site [polypeptide binding]; other site 880591002139 putative active site [active] 880591002140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 880591002141 Walker A/P-loop; other site 880591002142 ATP binding site [chemical binding]; other site 880591002143 Q-loop/lid; other site 880591002144 ABC transporter signature motif; other site 880591002145 Walker B; other site 880591002146 D-loop; other site 880591002147 H-loop/switch region; other site 880591002148 HlyD family secretion protein; Region: HlyD_3; pfam13437 880591002149 Transglycosylase; Region: Transgly; pfam00912 880591002150 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 880591002151 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 880591002152 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 880591002153 Nitrogen regulatory protein P-II; Region: P-II; smart00938 880591002154 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 880591002155 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 880591002156 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: TyrB; COG1448 880591002157 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880591002158 catalytic residue [active] 880591002159 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 880591002160 SmpB-tmRNA interface; other site 880591002161 Cytochrome c; Region: Cytochrom_C; cl11414 880591002162 TspO/MBR family; Region: TspO_MBR; pfam03073 880591002163 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 880591002164 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 880591002165 active site 880591002166 dimer interface [polypeptide binding]; other site 880591002167 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 880591002168 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 880591002169 active site 880591002170 metal binding site [ion binding]; metal-binding site 880591002171 nudix motif; other site 880591002172 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 880591002173 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 880591002174 dimer interface [polypeptide binding]; other site 880591002175 active site 880591002176 catalytic residue [active] 880591002177 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 880591002178 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880591002179 catalytic residue [active] 880591002180 Rrf2 family protein; Region: rrf2_super; TIGR00738 880591002181 Transcriptional regulator; Region: Rrf2; pfam02082 880591002182 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591002183 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591002184 DNA binding site [nucleotide binding] 880591002185 domain linker motif; other site 880591002186 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 880591002187 dimerization interface [polypeptide binding]; other site 880591002188 ligand binding site [chemical binding]; other site 880591002189 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 880591002190 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 880591002191 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 880591002192 dimer interface [polypeptide binding]; other site 880591002193 conserved gate region; other site 880591002194 putative PBP binding loops; other site 880591002195 ABC-ATPase subunit interface; other site 880591002196 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591002197 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 880591002198 dimer interface [polypeptide binding]; other site 880591002199 conserved gate region; other site 880591002200 putative PBP binding loops; other site 880591002201 ABC-ATPase subunit interface; other site 880591002202 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 880591002203 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 880591002204 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 880591002205 Walker A/P-loop; other site 880591002206 ATP binding site [chemical binding]; other site 880591002207 Q-loop/lid; other site 880591002208 ABC transporter signature motif; other site 880591002209 Walker B; other site 880591002210 D-loop; other site 880591002211 H-loop/switch region; other site 880591002212 TOBE domain; Region: TOBE_2; pfam08402 880591002213 Cytochrome c; Region: Cytochrom_C; cl11414 880591002214 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880591002215 Cytochrome c; Region: Cytochrom_C; pfam00034 880591002216 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880591002217 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880591002218 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880591002219 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 880591002220 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591002221 DNA binding site [nucleotide binding] 880591002222 domain linker motif; other site 880591002223 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880591002224 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 880591002225 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 880591002226 putative metal binding site [ion binding]; other site 880591002227 putative homodimer interface [polypeptide binding]; other site 880591002228 putative homotetramer interface [polypeptide binding]; other site 880591002229 putative homodimer-homodimer interface [polypeptide binding]; other site 880591002230 putative allosteric switch controlling residues; other site 880591002231 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 880591002232 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 880591002233 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880591002234 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 880591002235 AsnC family; Region: AsnC_trans_reg; pfam01037 880591002236 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 880591002237 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 880591002238 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880591002239 catalytic residue [active] 880591002240 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 880591002241 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 880591002242 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880591002243 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 880591002244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 880591002245 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 880591002246 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 880591002247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 880591002248 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 880591002249 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 880591002250 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880591002251 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 880591002252 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880591002253 HlyD family secretion protein; Region: HlyD_3; pfam13437 880591002254 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 880591002255 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880591002256 HlyD family secretion protein; Region: HlyD_3; pfam13437 880591002257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591002258 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 880591002259 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880591002260 active site 880591002261 catalytic tetrad [active] 880591002262 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 880591002263 NMT1/THI5 like; Region: NMT1; pfam09084 880591002264 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591002265 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591002266 Walker A/P-loop; other site 880591002267 ATP binding site [chemical binding]; other site 880591002268 Q-loop/lid; other site 880591002269 ABC transporter signature motif; other site 880591002270 Walker B; other site 880591002271 D-loop; other site 880591002272 H-loop/switch region; other site 880591002273 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591002274 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 880591002275 dimer interface [polypeptide binding]; other site 880591002276 conserved gate region; other site 880591002277 putative PBP binding loops; other site 880591002278 ABC-ATPase subunit interface; other site 880591002279 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; cl00246 880591002280 FAD binding site [chemical binding]; other site 880591002281 protoporphyrinogen oxidase; Region: PLN02576 880591002282 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880591002283 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 880591002284 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 880591002285 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 880591002286 active site 880591002287 homodimer interface [polypeptide binding]; other site 880591002288 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 880591002289 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 880591002290 hinge; other site 880591002291 active site 880591002292 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 880591002293 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 880591002294 Walker A/P-loop; other site 880591002295 ATP binding site [chemical binding]; other site 880591002296 Q-loop/lid; other site 880591002297 ABC transporter signature motif; other site 880591002298 Walker B; other site 880591002299 D-loop; other site 880591002300 H-loop/switch region; other site 880591002301 sulfate transport protein; Provisional; Region: cysT; CHL00187 880591002302 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 880591002303 dimer interface [polypeptide binding]; other site 880591002304 conserved gate region; other site 880591002305 putative PBP binding loops; other site 880591002306 ABC-ATPase subunit interface; other site 880591002307 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 880591002308 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 880591002309 dimer interface [polypeptide binding]; other site 880591002310 conserved gate region; other site 880591002311 putative PBP binding loops; other site 880591002312 ABC-ATPase subunit interface; other site 880591002313 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 880591002314 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 880591002315 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880591002316 putative acyl-acceptor binding pocket; other site 880591002317 AAA domain; Region: AAA_30; pfam13604 880591002318 Family description; Region: UvrD_C_2; pfam13538 880591002319 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 880591002320 Dehydroquinase class II; Region: DHquinase_II; pfam01220 880591002321 active site 880591002322 trimer interface [polypeptide binding]; other site 880591002323 dimer interface [polypeptide binding]; other site 880591002324 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 880591002325 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 880591002326 Walker A/P-loop; other site 880591002327 ATP binding site [chemical binding]; other site 880591002328 Q-loop/lid; other site 880591002329 ABC transporter signature motif; other site 880591002330 Walker B; other site 880591002331 D-loop; other site 880591002332 H-loop/switch region; other site 880591002333 ABC-2 type transporter; Region: ABC2_membrane; cl17235 880591002334 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 880591002335 short chain dehydrogenase; Provisional; Region: PRK09134 880591002336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591002337 NAD(P) binding site [chemical binding]; other site 880591002338 active site 880591002339 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 880591002340 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 880591002341 GIY-YIG motif/motif A; other site 880591002342 active site 880591002343 catalytic site [active] 880591002344 putative DNA binding site [nucleotide binding]; other site 880591002345 metal binding site [ion binding]; metal-binding site 880591002346 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 880591002347 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 880591002348 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 880591002349 MoaE interaction surface [polypeptide binding]; other site 880591002350 MoeB interaction surface [polypeptide binding]; other site 880591002351 thiocarboxylated glycine; other site 880591002352 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 880591002353 MoaE homodimer interface [polypeptide binding]; other site 880591002354 MoaD interaction [polypeptide binding]; other site 880591002355 active site residues [active] 880591002356 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 880591002357 aromatic amino acid exporter; Provisional; Region: PRK11689 880591002358 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 880591002359 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 880591002360 S-adenosylmethionine binding site [chemical binding]; other site 880591002361 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 880591002362 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 880591002363 substrate binding pocket [chemical binding]; other site 880591002364 chain length determination region; other site 880591002365 substrate-Mg2+ binding site; other site 880591002366 catalytic residues [active] 880591002367 aspartate-rich region 1; other site 880591002368 active site lid residues [active] 880591002369 aspartate-rich region 2; other site 880591002370 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 880591002371 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 880591002372 Tetratricopeptide repeat; Region: TPR_16; pfam13432 880591002373 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 880591002374 TPR motif; other site 880591002375 binding surface 880591002376 TPR repeat; Region: TPR_11; pfam13414 880591002377 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 880591002378 binding surface 880591002379 TPR motif; other site 880591002380 TPR repeat; Region: TPR_11; pfam13414 880591002381 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 880591002382 hydroxyglutarate oxidase; Provisional; Region: PRK11728 880591002383 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 880591002384 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 880591002385 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 880591002386 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 880591002387 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591002388 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 880591002389 Coenzyme A binding pocket [chemical binding]; other site 880591002390 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 880591002391 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 880591002392 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 880591002393 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880591002394 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880591002395 ligand binding site [chemical binding]; other site 880591002396 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 880591002397 UbiA prenyltransferase family; Region: UbiA; pfam01040 880591002398 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 880591002399 glutamate--cysteine ligase; Region: PLN02611 880591002400 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 880591002401 dihydroorotase; Validated; Region: PRK09059 880591002402 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 880591002403 active site 880591002404 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 880591002405 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 880591002406 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 880591002407 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 880591002408 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 880591002409 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 880591002410 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 880591002411 hinge; other site 880591002412 active site 880591002413 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880591002414 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 880591002415 putative acyl-acceptor binding pocket; other site 880591002416 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 880591002417 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 880591002418 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880591002419 Walker A/P-loop; other site 880591002420 ATP binding site [chemical binding]; other site 880591002421 Q-loop/lid; other site 880591002422 ABC transporter signature motif; other site 880591002423 Walker B; other site 880591002424 D-loop; other site 880591002425 H-loop/switch region; other site 880591002426 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 880591002427 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 880591002428 diaminopimelate decarboxylase; Region: lysA; TIGR01048 880591002429 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 880591002430 active site 880591002431 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880591002432 substrate binding site [chemical binding]; other site 880591002433 catalytic residues [active] 880591002434 dimer interface [polypeptide binding]; other site 880591002435 argininosuccinate lyase; Provisional; Region: PRK00855 880591002436 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 880591002437 active sites [active] 880591002438 tetramer interface [polypeptide binding]; other site 880591002439 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 880591002440 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880591002441 catalytic residues [active] 880591002442 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 880591002443 Putative transcriptional regulator [Transcription]; Region: COG1678 880591002444 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 880591002445 Recombination protein O N terminal; Region: RecO_N; pfam11967 880591002446 Recombination protein O C terminal; Region: RecO_C; pfam02565 880591002447 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 880591002448 GTPase Era; Reviewed; Region: era; PRK00089 880591002449 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 880591002450 G1 box; other site 880591002451 GTP/Mg2+ binding site [chemical binding]; other site 880591002452 Switch I region; other site 880591002453 G2 box; other site 880591002454 Switch II region; other site 880591002455 G3 box; other site 880591002456 G4 box; other site 880591002457 G5 box; other site 880591002458 KH domain; Region: KH_2; pfam07650 880591002459 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 880591002460 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 880591002461 dimerization interface [polypeptide binding]; other site 880591002462 active site 880591002463 metal binding site [ion binding]; metal-binding site 880591002464 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 880591002465 dsRNA binding site [nucleotide binding]; other site 880591002466 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 880591002467 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 880591002468 Catalytic site [active] 880591002469 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 880591002470 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 880591002471 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 880591002472 active site 880591002473 hydrophilic channel; other site 880591002474 dimerization interface [polypeptide binding]; other site 880591002475 catalytic residues [active] 880591002476 active site lid [active] 880591002477 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 880591002478 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 880591002479 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 880591002480 Zn2+ binding site [ion binding]; other site 880591002481 Mg2+ binding site [ion binding]; other site 880591002482 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 880591002483 synthetase active site [active] 880591002484 NTP binding site [chemical binding]; other site 880591002485 metal binding site [ion binding]; metal-binding site 880591002486 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 880591002487 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 880591002488 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 880591002489 Uncharacterized conserved protein [Function unknown]; Region: COG1432 880591002490 LabA_like proteins; Region: LabA; cd10911 880591002491 putative metal binding site [ion binding]; other site 880591002492 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 880591002493 RNA/DNA hybrid binding site [nucleotide binding]; other site 880591002494 active site 880591002495 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 880591002496 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 880591002497 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 880591002498 putative active site [active] 880591002499 putative substrate binding site [chemical binding]; other site 880591002500 putative cosubstrate binding site; other site 880591002501 catalytic site [active] 880591002502 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 880591002503 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 880591002504 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 880591002505 putative active site [active] 880591002506 substrate binding site [chemical binding]; other site 880591002507 putative cosubstrate binding site; other site 880591002508 catalytic site [active] 880591002509 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 880591002510 substrate binding site [chemical binding]; other site 880591002511 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 880591002512 active site 880591002513 catalytic residues [active] 880591002514 metal binding site [ion binding]; metal-binding site 880591002515 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 880591002516 active site 880591002517 catalytic residues [active] 880591002518 metal binding site [ion binding]; metal-binding site 880591002519 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 880591002520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591002521 homodimer interface [polypeptide binding]; other site 880591002522 catalytic residue [active] 880591002523 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 880591002524 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 880591002525 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 880591002526 putative dimer interface [polypeptide binding]; other site 880591002527 N-terminal domain interface [polypeptide binding]; other site 880591002528 putative substrate binding pocket (H-site) [chemical binding]; other site 880591002529 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 880591002530 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 880591002531 active site 880591002532 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 880591002533 ABC transporter signature motif; other site 880591002534 Walker B; other site 880591002535 D-loop; other site 880591002536 H-loop/switch region; other site 880591002537 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 880591002538 AAA domain; Region: AAA_23; pfam13476 880591002539 Walker A/P-loop; other site 880591002540 ATP binding site [chemical binding]; other site 880591002541 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591002542 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 880591002543 Coenzyme A binding pocket [chemical binding]; other site 880591002544 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 880591002545 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 880591002546 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 880591002547 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 880591002548 substrate binding site [chemical binding]; other site 880591002549 ligand binding site [chemical binding]; other site 880591002550 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 880591002551 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 880591002552 substrate binding site [chemical binding]; other site 880591002553 tartrate dehydrogenase; Region: TTC; TIGR02089 880591002554 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 880591002555 EamA-like transporter family; Region: EamA; pfam00892 880591002556 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 880591002557 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 880591002558 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 880591002559 DctM-like transporters; Region: DctM; pfam06808 880591002560 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 880591002561 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 880591002562 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 880591002563 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591002564 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591002565 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591002566 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 880591002567 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 880591002568 dimer interface [polypeptide binding]; other site 880591002569 active site 880591002570 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880591002571 substrate binding site [chemical binding]; other site 880591002572 catalytic residue [active] 880591002573 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591002574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591002575 DNA-binding site [nucleotide binding]; DNA binding site 880591002576 FCD domain; Region: FCD; pfam07729 880591002577 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 880591002578 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 880591002579 DNA binding residues [nucleotide binding] 880591002580 dimer interface [polypeptide binding]; other site 880591002581 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 880591002582 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880591002583 active site 880591002584 catalytic tetrad [active] 880591002585 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591002586 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591002587 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880591002588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591002589 NAD(P) binding site [chemical binding]; other site 880591002590 active site 880591002591 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880591002592 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 880591002593 active site 880591002594 catalytic tetrad [active] 880591002595 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 880591002596 catalytic motif [active] 880591002597 Zn binding site [ion binding]; other site 880591002598 RibD C-terminal domain; Region: RibD_C; cl17279 880591002599 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 880591002600 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 880591002601 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; cl00522 880591002602 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 880591002603 active site 880591002604 dimerization interface [polypeptide binding]; other site 880591002605 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 880591002606 homopentamer interface [polypeptide binding]; other site 880591002607 active site 880591002608 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 880591002609 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880591002610 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 880591002611 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 880591002612 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880591002613 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 880591002614 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591002615 Trp docking motif [polypeptide binding]; other site 880591002616 active site 880591002617 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 880591002618 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880591002619 active site 880591002620 catalytic tetrad [active] 880591002621 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 880591002622 Domain of unknown function DUF20; Region: UPF0118; pfam01594 880591002623 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 880591002624 Predicted transcriptional regulator [Transcription]; Region: COG1959 880591002625 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 880591002626 putative switch regulator; other site 880591002627 non-specific DNA interactions [nucleotide binding]; other site 880591002628 DNA binding site [nucleotide binding] 880591002629 sequence specific DNA binding site [nucleotide binding]; other site 880591002630 putative cAMP binding site [chemical binding]; other site 880591002631 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591002632 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591002633 DNA binding site [nucleotide binding] 880591002634 domain linker motif; other site 880591002635 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 880591002636 ligand binding site [chemical binding]; other site 880591002637 dimerization interface [polypeptide binding]; other site 880591002638 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 880591002639 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 880591002640 dimer interface [polypeptide binding]; other site 880591002641 conserved gate region; other site 880591002642 putative PBP binding loops; other site 880591002643 ABC-ATPase subunit interface; other site 880591002644 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880591002645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591002646 Walker A/P-loop; other site 880591002647 ATP binding site [chemical binding]; other site 880591002648 Q-loop/lid; other site 880591002649 ABC transporter signature motif; other site 880591002650 Walker B; other site 880591002651 D-loop; other site 880591002652 H-loop/switch region; other site 880591002653 TOBE domain; Region: TOBE_2; pfam08402 880591002654 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 880591002655 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880591002656 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 880591002657 dimer interface [polypeptide binding]; other site 880591002658 conserved gate region; other site 880591002659 putative PBP binding loops; other site 880591002660 ABC-ATPase subunit interface; other site 880591002661 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 880591002662 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 880591002663 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 880591002664 PA14 domain; Region: PA14; cl08459 880591002665 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 880591002666 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 880591002667 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 880591002668 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 880591002669 metal binding site [ion binding]; metal-binding site 880591002670 amidase; Provisional; Region: PRK07486 880591002671 Amidase; Region: Amidase; cl11426 880591002672 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880591002673 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880591002674 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 880591002675 homotrimer interaction site [polypeptide binding]; other site 880591002676 putative active site [active] 880591002677 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591002678 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591002679 Walker A/P-loop; other site 880591002680 ATP binding site [chemical binding]; other site 880591002681 Q-loop/lid; other site 880591002682 ABC transporter signature motif; other site 880591002683 Walker B; other site 880591002684 D-loop; other site 880591002685 H-loop/switch region; other site 880591002686 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591002687 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591002688 Walker A/P-loop; other site 880591002689 ATP binding site [chemical binding]; other site 880591002690 Q-loop/lid; other site 880591002691 ABC transporter signature motif; other site 880591002692 Walker B; other site 880591002693 D-loop; other site 880591002694 H-loop/switch region; other site 880591002695 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591002696 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591002697 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 880591002698 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 880591002699 dimer interface [polypeptide binding]; other site 880591002700 conserved gate region; other site 880591002701 putative PBP binding loops; other site 880591002702 ABC-ATPase subunit interface; other site 880591002703 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591002704 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 880591002705 dimer interface [polypeptide binding]; other site 880591002706 conserved gate region; other site 880591002707 putative PBP binding loops; other site 880591002708 ABC-ATPase subunit interface; other site 880591002709 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591002710 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591002711 DNA-binding site [nucleotide binding]; DNA binding site 880591002712 FCD domain; Region: FCD; pfam07729 880591002713 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591002714 Trp docking motif [polypeptide binding]; other site 880591002715 active site 880591002716 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591002717 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 880591002718 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 880591002719 Predicted membrane protein (DUF2231); Region: DUF2231; pfam09990 880591002720 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 880591002721 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 880591002722 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 880591002723 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 880591002724 D-pathway; other site 880591002725 Putative ubiquinol binding site [chemical binding]; other site 880591002726 Low-spin heme (heme b) binding site [chemical binding]; other site 880591002727 Putative water exit pathway; other site 880591002728 Binuclear center (heme o3/CuB) [ion binding]; other site 880591002729 K-pathway; other site 880591002730 Putative proton exit pathway; other site 880591002731 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 880591002732 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880591002733 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880591002734 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 880591002735 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 880591002736 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 880591002737 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591002738 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 880591002739 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 880591002740 DNA binding residues [nucleotide binding] 880591002741 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 880591002742 ATP binding site [chemical binding]; other site 880591002743 Mg2+ binding site [ion binding]; other site 880591002744 G-X-G motif; other site 880591002745 Z1 domain; Region: Z1; pfam10593 880591002746 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 880591002747 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 880591002748 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 880591002749 active site 880591002750 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880591002751 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 880591002752 cofactor binding site; other site 880591002753 DNA binding site [nucleotide binding] 880591002754 substrate interaction site [chemical binding]; other site 880591002755 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880591002756 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 880591002757 C1q domain; Region: C1q; cl17543 880591002758 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 880591002759 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 880591002760 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 880591002761 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 880591002762 catalytic residues [active] 880591002763 catalytic nucleophile [active] 880591002764 Presynaptic Site I dimer interface [polypeptide binding]; other site 880591002765 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 880591002766 Synaptic Flat tetramer interface [polypeptide binding]; other site 880591002767 Synaptic Site I dimer interface [polypeptide binding]; other site 880591002768 DNA binding site [nucleotide binding] 880591002769 Recombinase; Region: Recombinase; pfam07508 880591002770 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 880591002771 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 880591002772 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 880591002773 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880591002774 cofactor binding site; other site 880591002775 DNA binding site [nucleotide binding] 880591002776 substrate interaction site [chemical binding]; other site 880591002777 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 880591002778 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880591002779 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 880591002780 DXD motif; other site 880591002781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591002782 NAD(P) binding site [chemical binding]; other site 880591002783 active site 880591002784 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591002785 Major Facilitator Superfamily; Region: MFS_1; pfam07690 880591002786 RmuC family; Region: RmuC; pfam02646 880591002787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591002788 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 880591002789 Walker A/P-loop; other site 880591002790 ATP binding site [chemical binding]; other site 880591002791 Q-loop/lid; other site 880591002792 ABC transporter signature motif; other site 880591002793 Walker B; other site 880591002794 D-loop; other site 880591002795 H-loop/switch region; other site 880591002796 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 880591002797 putative PBP binding regions; other site 880591002798 ABC-ATPase subunit interface; other site 880591002799 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 880591002800 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 880591002801 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 880591002802 intersubunit interface [polypeptide binding]; other site 880591002803 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 880591002804 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 880591002805 N-terminal plug; other site 880591002806 ligand-binding site [chemical binding]; other site 880591002807 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 880591002808 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880591002809 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 880591002810 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 880591002811 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880591002812 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880591002813 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 880591002814 IMP binding site; other site 880591002815 dimer interface [polypeptide binding]; other site 880591002816 partial ornithine binding site; other site 880591002817 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 880591002818 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 880591002819 RNA binding site [nucleotide binding]; other site 880591002820 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 880591002821 RNA binding site [nucleotide binding]; other site 880591002822 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 880591002823 RNA binding site [nucleotide binding]; other site 880591002824 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 880591002825 RNA binding site [nucleotide binding]; other site 880591002826 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 880591002827 RNA binding site [nucleotide binding]; other site 880591002828 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 880591002829 RNA binding site [nucleotide binding]; other site 880591002830 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 880591002831 IHF dimer interface [polypeptide binding]; other site 880591002832 IHF - DNA interface [nucleotide binding]; other site 880591002833 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 880591002834 active site 880591002835 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 880591002836 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591002837 Coenzyme A binding pocket [chemical binding]; other site 880591002838 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 880591002839 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 880591002840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591002841 catalytic residue [active] 880591002842 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 880591002843 putative active site [active] 880591002844 catalytic residue [active] 880591002845 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 880591002846 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 880591002847 CTC domain interface [polypeptide binding]; other site 880591002848 L16 interface [polypeptide binding]; other site 880591002849 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 880591002850 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 880591002851 phosphate binding site [ion binding]; other site 880591002852 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 880591002853 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 880591002854 substrate binding site [chemical binding]; other site 880591002855 active site 880591002856 catalytic residues [active] 880591002857 heterodimer interface [polypeptide binding]; other site 880591002858 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591002859 Coenzyme A binding pocket [chemical binding]; other site 880591002860 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880591002861 Beta-lactamase; Region: Beta-lactamase; pfam00144 880591002862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591002863 H-loop/switch region; other site 880591002864 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591002865 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 880591002866 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591002867 Walker A/P-loop; other site 880591002868 ATP binding site [chemical binding]; other site 880591002869 Q-loop/lid; other site 880591002870 ABC transporter signature motif; other site 880591002871 Walker B; other site 880591002872 D-loop; other site 880591002873 H-loop/switch region; other site 880591002874 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591002875 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591002876 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 880591002877 dimer interface [polypeptide binding]; other site 880591002878 conserved gate region; other site 880591002879 putative PBP binding loops; other site 880591002880 ABC-ATPase subunit interface; other site 880591002881 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591002882 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 880591002883 dimer interface [polypeptide binding]; other site 880591002884 conserved gate region; other site 880591002885 putative PBP binding loops; other site 880591002886 ABC-ATPase subunit interface; other site 880591002887 D-lactate dehydrogenase; Provisional; Region: PRK11183 880591002888 FAD binding domain; Region: FAD_binding_4; pfam01565 880591002889 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 880591002890 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 880591002891 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 880591002892 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 880591002893 FeS/SAM binding site; other site 880591002894 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 880591002895 PhoH-like protein; Region: PhoH; pfam02562 880591002896 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 880591002897 FOG: CBS domain [General function prediction only]; Region: COG0517 880591002898 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 880591002899 Transporter associated domain; Region: CorC_HlyC; pfam03471 880591002900 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 880591002901 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 880591002902 putative active site [active] 880591002903 catalytic triad [active] 880591002904 putative dimer interface [polypeptide binding]; other site 880591002905 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 880591002906 S-adenosylmethionine synthetase; Validated; Region: PRK05250 880591002907 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 880591002908 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 880591002909 Bacterial SH3 domain; Region: SH3_3; pfam08239 880591002910 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 880591002911 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880591002912 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 880591002913 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 880591002914 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 880591002915 catalytic triad [active] 880591002916 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 880591002917 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 880591002918 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 880591002919 dimer interface [polypeptide binding]; other site 880591002920 conserved gate region; other site 880591002921 putative PBP binding loops; other site 880591002922 ABC-ATPase subunit interface; other site 880591002923 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 880591002924 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 880591002925 ABC-ATPase subunit interface; other site 880591002926 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 880591002927 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 880591002928 substrate binding pocket [chemical binding]; other site 880591002929 membrane-bound complex binding site; other site 880591002930 hinge residues; other site 880591002931 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 880591002932 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 880591002933 Walker A/P-loop; other site 880591002934 ATP binding site [chemical binding]; other site 880591002935 Q-loop/lid; other site 880591002936 ABC transporter signature motif; other site 880591002937 Walker B; other site 880591002938 D-loop; other site 880591002939 H-loop/switch region; other site 880591002940 Protein of unknown function (DUF519); Region: DUF519; pfam04378 880591002941 Acetokinase family; Region: Acetate_kinase; cl17229 880591002942 CTP synthetase; Validated; Region: pyrG; PRK05380 880591002943 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 880591002944 Catalytic site [active] 880591002945 active site 880591002946 UTP binding site [chemical binding]; other site 880591002947 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 880591002948 active site 880591002949 putative oxyanion hole; other site 880591002950 catalytic triad [active] 880591002951 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 880591002952 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 880591002953 GDP-binding site [chemical binding]; other site 880591002954 ACT binding site; other site 880591002955 IMP binding site; other site 880591002956 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 880591002957 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 880591002958 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 880591002959 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 880591002960 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 880591002961 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 880591002962 generic binding surface II; other site 880591002963 generic binding surface I; other site 880591002964 protease TldD; Provisional; Region: tldD; PRK10735 880591002965 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 880591002966 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00185 880591002967 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 880591002968 potential frameshift: common BLAST hit: gi|126461249|ref|YP_001042363.1| protoheme IX farnesyltransferase 880591002969 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 880591002970 UbiA prenyltransferase family; Region: UbiA; pfam01040 880591002971 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 880591002972 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 880591002973 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 880591002974 Subunit III/VIIa interface [polypeptide binding]; other site 880591002975 Phospholipid binding site [chemical binding]; other site 880591002976 Subunit I/III interface [polypeptide binding]; other site 880591002977 Subunit III/VIb interface [polypeptide binding]; other site 880591002978 Subunit III/VIa interface; other site 880591002979 Subunit III/Vb interface [polypeptide binding]; other site 880591002980 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 880591002981 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 880591002982 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 880591002983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591002984 catalytic residue [active] 880591002985 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880591002986 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880591002987 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880591002988 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 880591002989 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 880591002990 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 880591002991 FAD binding domain; Region: FAD_binding_4; pfam01565 880591002992 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880591002993 active site 880591002994 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880591002995 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 880591002996 DNA binding residues [nucleotide binding] 880591002997 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 880591002998 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591002999 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591003000 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 880591003001 dimer interface [polypeptide binding]; other site 880591003002 conserved gate region; other site 880591003003 putative PBP binding loops; other site 880591003004 ABC-ATPase subunit interface; other site 880591003005 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591003006 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 880591003007 dimer interface [polypeptide binding]; other site 880591003008 conserved gate region; other site 880591003009 putative PBP binding loops; other site 880591003010 ABC-ATPase subunit interface; other site 880591003011 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591003012 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 880591003013 Walker A/P-loop; other site 880591003014 ATP binding site [chemical binding]; other site 880591003015 Q-loop/lid; other site 880591003016 ABC transporter signature motif; other site 880591003017 Walker B; other site 880591003018 D-loop; other site 880591003019 H-loop/switch region; other site 880591003020 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591003021 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591003022 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591003023 Walker A/P-loop; other site 880591003024 ATP binding site [chemical binding]; other site 880591003025 Q-loop/lid; other site 880591003026 ABC transporter signature motif; other site 880591003027 Walker B; other site 880591003028 D-loop; other site 880591003029 H-loop/switch region; other site 880591003030 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591003031 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591003032 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591003033 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591003034 Protein of unknown function (DUF917); Region: DUF917; pfam06032 880591003035 Uncharacterized conserved protein [Function unknown]; Region: COG3535 880591003036 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 880591003037 DNA-binding site [nucleotide binding]; DNA binding site 880591003038 RNA-binding motif; other site 880591003039 ArsC family; Region: ArsC; pfam03960 880591003040 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880591003041 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 880591003042 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 880591003043 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 880591003044 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 880591003045 active site 880591003046 dimer interface [polypeptide binding]; other site 880591003047 motif 1; other site 880591003048 motif 2; other site 880591003049 motif 3; other site 880591003050 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 880591003051 anticodon binding site; other site 880591003052 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880591003053 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 880591003054 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880591003055 primosome assembly protein PriA; Validated; Region: PRK05580 880591003056 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 880591003057 ATP binding site [chemical binding]; other site 880591003058 putative Mg++ binding site [ion binding]; other site 880591003059 methionine sulfoxide reductase A; Provisional; Region: PRK00058 880591003060 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 880591003061 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 880591003062 rod shape-determining protein MreC; Provisional; Region: PRK13922 880591003063 rod shape-determining protein MreC; Region: MreC; pfam04085 880591003064 potential frameshift: common BLAST hit: gi|56695335|ref|YP_165683.1| rod shape-determining protein MreB 880591003065 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880591003066 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880591003067 nucleotide binding site [chemical binding]; other site 880591003068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 880591003069 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 880591003070 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 880591003071 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 880591003072 dimer interface [polypeptide binding]; other site 880591003073 active site 880591003074 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 880591003075 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 880591003076 active site 880591003077 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 880591003078 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 880591003079 active site 880591003080 motif I; other site 880591003081 motif II; other site 880591003082 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 880591003083 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 880591003084 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880591003085 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 880591003086 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880591003087 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 880591003088 Probable Catalytic site; other site 880591003089 metal-binding site 880591003090 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 880591003091 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880591003092 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 880591003093 RNA binding surface [nucleotide binding]; other site 880591003094 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880591003095 active site 880591003096 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 880591003097 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 880591003098 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591003099 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 880591003100 DNA binding residues [nucleotide binding] 880591003101 hypothetical protein; Provisional; Region: PRK13687 880591003102 pantothenate kinase; Provisional; Region: PRK05439 880591003103 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 880591003104 ATP-binding site [chemical binding]; other site 880591003105 CoA-binding site [chemical binding]; other site 880591003106 Mg2+-binding site [ion binding]; other site 880591003107 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 880591003108 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 880591003109 active site 880591003110 Zn binding site [ion binding]; other site 880591003111 SCP-2 sterol transfer family; Region: SCP2; pfam02036 880591003112 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 880591003113 binding surface 880591003114 TPR repeat; Region: TPR_11; pfam13414 880591003115 TPR motif; other site 880591003116 DEAD-like helicases superfamily; Region: DEXDc; smart00487 880591003117 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 880591003118 ATP binding site [chemical binding]; other site 880591003119 putative Mg++ binding site [ion binding]; other site 880591003120 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 880591003121 nucleotide binding region [chemical binding]; other site 880591003122 ATP-binding site [chemical binding]; other site 880591003123 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 880591003124 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 880591003125 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 880591003126 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 880591003127 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 880591003128 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 880591003129 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880591003130 active site 880591003131 dimer interface [polypeptide binding]; other site 880591003132 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 880591003133 HflK protein; Region: hflK; TIGR01933 880591003134 HflC protein; Region: hflC; TIGR01932 880591003135 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 880591003136 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 880591003137 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 880591003138 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 880591003139 protein binding site [polypeptide binding]; other site 880591003140 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 880591003141 protein binding site [polypeptide binding]; other site 880591003142 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 880591003143 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 880591003144 catalytic loop [active] 880591003145 iron binding site [ion binding]; other site 880591003146 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 880591003147 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 880591003148 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880591003149 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880591003150 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 880591003151 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 880591003152 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 880591003153 G1 box; other site 880591003154 GTP/Mg2+ binding site [chemical binding]; other site 880591003155 G2 box; other site 880591003156 G3 box; other site 880591003157 Switch II region; other site 880591003158 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 880591003159 G1 box; other site 880591003160 GTP/Mg2+ binding site [chemical binding]; other site 880591003161 G2 box; other site 880591003162 Switch I region; other site 880591003163 G3 box; other site 880591003164 Switch II region; other site 880591003165 G4 box; other site 880591003166 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 880591003167 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 880591003168 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 880591003169 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 880591003170 dimer interface [polypeptide binding]; other site 880591003171 putative tRNA-binding site [nucleotide binding]; other site 880591003172 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 880591003173 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 880591003174 dimerization interface [polypeptide binding]; other site 880591003175 ligand binding site [chemical binding]; other site 880591003176 NADP binding site [chemical binding]; other site 880591003177 catalytic site [active] 880591003178 thymidine kinase; Provisional; Region: PRK04296 880591003179 Cytochrome c; Region: Cytochrom_C; pfam00034 880591003180 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880591003181 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 880591003182 Walker A/P-loop; other site 880591003183 ATP binding site [chemical binding]; other site 880591003184 Q-loop/lid; other site 880591003185 ABC transporter signature motif; other site 880591003186 Walker B; other site 880591003187 D-loop; other site 880591003188 H-loop/switch region; other site 880591003189 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 880591003190 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 880591003191 FtsX-like permease family; Region: FtsX; pfam02687 880591003192 prolyl-tRNA synthetase; Provisional; Region: PRK12325 880591003193 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 880591003194 dimer interface [polypeptide binding]; other site 880591003195 motif 1; other site 880591003196 active site 880591003197 motif 2; other site 880591003198 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 880591003199 active site 880591003200 motif 3; other site 880591003201 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 880591003202 anticodon binding site; other site 880591003203 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 880591003204 Domain of unknown function DUF20; Region: UPF0118; pfam01594 880591003205 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 880591003206 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 880591003207 polyphosphate kinase; Provisional; Region: PRK05443 880591003208 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 880591003209 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 880591003210 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 880591003211 putative domain interface [polypeptide binding]; other site 880591003212 putative active site [active] 880591003213 catalytic site [active] 880591003214 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 880591003215 putative active site [active] 880591003216 catalytic site [active] 880591003217 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 880591003218 Ligand Binding Site [chemical binding]; other site 880591003219 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 880591003220 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 880591003221 active site 880591003222 HIGH motif; other site 880591003223 dimer interface [polypeptide binding]; other site 880591003224 KMSKS motif; other site 880591003225 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 880591003226 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 880591003227 hypothetical protein; Provisional; Region: PRK10621 880591003228 purine nucleoside phosphorylase; Provisional; Region: PRK08202 880591003229 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591003230 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 880591003231 TM-ABC transporter signature motif; other site 880591003232 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 880591003233 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591003234 TM-ABC transporter signature motif; other site 880591003235 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 880591003236 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 880591003237 Walker A/P-loop; other site 880591003238 ATP binding site [chemical binding]; other site 880591003239 Q-loop/lid; other site 880591003240 ABC transporter signature motif; other site 880591003241 Walker B; other site 880591003242 D-loop; other site 880591003243 H-loop/switch region; other site 880591003244 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 880591003245 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 880591003246 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 880591003247 ligand binding site [chemical binding]; other site 880591003248 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880591003249 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 880591003250 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 880591003251 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 880591003252 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 880591003253 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 880591003254 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591003255 active site 880591003256 HIGH motif; other site 880591003257 nucleotide binding site [chemical binding]; other site 880591003258 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 880591003259 active site 880591003260 KMSKS motif; other site 880591003261 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 880591003262 DNA-binding site [nucleotide binding]; DNA binding site 880591003263 RNA-binding motif; other site 880591003264 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 880591003265 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591003266 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591003267 ABC transporter; Region: ABC_tran_2; pfam12848 880591003268 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591003269 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591003270 active site 880591003271 KMSKS motif; other site 880591003272 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 880591003273 tellurite resistance protein terB; Region: terB; cd07176 880591003274 putative metal binding site [ion binding]; other site 880591003275 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 880591003276 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591003277 active site 880591003278 nucleotide binding site [chemical binding]; other site 880591003279 HIGH motif; other site 880591003280 KMSKS motif; other site 880591003281 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 880591003282 UreD urease accessory protein; Region: UreD; pfam01774 880591003283 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 880591003284 alpha-gamma subunit interface [polypeptide binding]; other site 880591003285 beta-gamma subunit interface [polypeptide binding]; other site 880591003286 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 880591003287 gamma-beta subunit interface [polypeptide binding]; other site 880591003288 alpha-beta subunit interface [polypeptide binding]; other site 880591003289 urease subunit alpha; Reviewed; Region: ureC; PRK13207 880591003290 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 880591003291 subunit interactions [polypeptide binding]; other site 880591003292 active site 880591003293 flap region; other site 880591003294 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 880591003295 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 880591003296 dimer interface [polypeptide binding]; other site 880591003297 catalytic residues [active] 880591003298 UreF; Region: UreF; pfam01730 880591003299 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 880591003300 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 880591003301 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591003302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591003303 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 880591003304 putative effector binding pocket; other site 880591003305 dimerization interface [polypeptide binding]; other site 880591003306 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 880591003307 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_12; cd07255 880591003308 putative metal binding site [ion binding]; other site 880591003309 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 880591003310 active site 880591003311 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 880591003312 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 880591003313 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 880591003314 putative dimer interface [polypeptide binding]; other site 880591003315 N-terminal domain interface [polypeptide binding]; other site 880591003316 putative substrate binding pocket (H-site) [chemical binding]; other site 880591003317 aminotransferase; Provisional; Region: PRK06105 880591003318 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 880591003319 inhibitor-cofactor binding pocket; inhibition site 880591003320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591003321 catalytic residue [active] 880591003322 UDP-glucose 4-epimerase; Region: PLN02240 880591003323 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 880591003324 NAD binding site [chemical binding]; other site 880591003325 homodimer interface [polypeptide binding]; other site 880591003326 active site 880591003327 substrate binding site [chemical binding]; other site 880591003328 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 880591003329 dimer interface [polypeptide binding]; other site 880591003330 active site 880591003331 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 880591003332 dimer interface [polypeptide binding]; other site 880591003333 active site 880591003334 recombination protein RecR; Reviewed; Region: recR; PRK00076 880591003335 RecR protein; Region: RecR; pfam02132 880591003336 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 880591003337 putative active site [active] 880591003338 putative metal-binding site [ion binding]; other site 880591003339 tetramer interface [polypeptide binding]; other site 880591003340 hypothetical protein; Validated; Region: PRK00153 880591003341 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 880591003342 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 880591003343 Walker A motif; other site 880591003344 ATP binding site [chemical binding]; other site 880591003345 Walker B motif; other site 880591003346 arginine finger; other site 880591003347 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 880591003348 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 880591003349 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 880591003350 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880591003351 Coenzyme A binding pocket [chemical binding]; other site 880591003352 Uncharacterized conserved protein [Function unknown]; Region: COG3791 880591003353 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 880591003354 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 880591003355 active site 880591003356 motif I; other site 880591003357 motif II; other site 880591003358 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 880591003359 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880591003360 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 880591003361 hydrophobic ligand binding site; other site 880591003362 prephenate dehydratase; Provisional; Region: PRK11899 880591003363 Prephenate dehydratase; Region: PDT; pfam00800 880591003364 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 880591003365 putative L-Phe binding site [chemical binding]; other site 880591003366 Cytochrome c; Region: Cytochrom_C; cl11414 880591003367 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 880591003368 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 880591003369 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 880591003370 dimer interface [polypeptide binding]; other site 880591003371 conserved gate region; other site 880591003372 putative PBP binding loops; other site 880591003373 ABC-ATPase subunit interface; other site 880591003374 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 880591003375 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 880591003376 dimer interface [polypeptide binding]; other site 880591003377 conserved gate region; other site 880591003378 putative PBP binding loops; other site 880591003379 ABC-ATPase subunit interface; other site 880591003380 potential frameshift: common BLAST hit: gi|159043211|ref|YP_001532005.1| peptide ABC transporter 880591003381 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591003382 Walker A/P-loop; other site 880591003383 ATP binding site [chemical binding]; other site 880591003384 Q-loop/lid; other site 880591003385 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880591003386 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591003387 ABC transporter signature motif; other site 880591003388 Walker B; other site 880591003389 D-loop; other site 880591003390 H-loop/switch region; other site 880591003391 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591003392 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591003393 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591003394 Walker A/P-loop; other site 880591003395 ATP binding site [chemical binding]; other site 880591003396 Q-loop/lid; other site 880591003397 ABC transporter signature motif; other site 880591003398 Walker B; other site 880591003399 D-loop; other site 880591003400 H-loop/switch region; other site 880591003401 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 880591003402 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 880591003403 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 880591003404 Uncharacterized conserved protein [Function unknown]; Region: COG2127 880591003405 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 880591003406 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 880591003407 S-adenosylmethionine binding site [chemical binding]; other site 880591003408 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 880591003409 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 880591003410 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 880591003411 substrate binding site [chemical binding]; other site 880591003412 active site 880591003413 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 880591003414 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 880591003415 domain interfaces; other site 880591003416 active site 880591003417 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 880591003418 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 880591003419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591003420 homodimer interface [polypeptide binding]; other site 880591003421 catalytic residue [active] 880591003422 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 880591003423 prephenate dehydrogenase; Validated; Region: PRK08507 880591003424 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 880591003425 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 880591003426 Protein of unknown function, DUF606; Region: DUF606; pfam04657 880591003427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 880591003428 hypothetical protein; Provisional; Region: PRK05208 880591003429 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 880591003430 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 880591003431 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 880591003432 RNA binding surface [nucleotide binding]; other site 880591003433 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 880591003434 S-adenosylmethionine binding site [chemical binding]; other site 880591003435 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 880591003436 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 880591003437 Walker A motif; other site 880591003438 ATP binding site [chemical binding]; other site 880591003439 Walker B motif; other site 880591003440 arginine finger; other site 880591003441 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 880591003442 Walker A motif; other site 880591003443 ATP binding site [chemical binding]; other site 880591003444 Walker B motif; other site 880591003445 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 880591003446 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 880591003447 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880591003448 Methyltransferase domain; Region: Methyltransf_11; pfam08241 880591003449 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 880591003450 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 880591003451 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 880591003452 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 880591003453 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 880591003454 beta subunit interaction interface [polypeptide binding]; other site 880591003455 Walker A motif; other site 880591003456 ATP binding site [chemical binding]; other site 880591003457 Walker B motif; other site 880591003458 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 880591003459 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 880591003460 core domain interface [polypeptide binding]; other site 880591003461 delta subunit interface [polypeptide binding]; other site 880591003462 epsilon subunit interface [polypeptide binding]; other site 880591003463 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 880591003464 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 880591003465 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 880591003466 alpha subunit interaction interface [polypeptide binding]; other site 880591003467 Walker A motif; other site 880591003468 ATP binding site [chemical binding]; other site 880591003469 Walker B motif; other site 880591003470 inhibitor binding site; inhibition site 880591003471 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 880591003472 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 880591003473 gamma subunit interface [polypeptide binding]; other site 880591003474 LBP interface [polypeptide binding]; other site 880591003475 H-type lectin domain; Region: H_lectin; pfam09458 880591003476 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 880591003477 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 880591003478 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880591003479 active site 880591003480 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 880591003481 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 880591003482 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880591003483 catalytic residue [active] 880591003484 hypothetical protein; Provisional; Region: PRK05170 880591003485 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 880591003486 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 880591003487 active site 880591003488 Riboflavin kinase; Region: Flavokinase; pfam01687 880591003489 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 880591003490 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 880591003491 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 880591003492 DHH family; Region: DHH; pfam01368 880591003493 DHHA2 domain; Region: DHHA2; pfam02833 880591003494 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 880591003495 oligomerisation interface [polypeptide binding]; other site 880591003496 mobile loop; other site 880591003497 roof hairpin; other site 880591003498 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 880591003499 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 880591003500 ring oligomerisation interface [polypeptide binding]; other site 880591003501 ATP/Mg binding site [chemical binding]; other site 880591003502 stacking interactions; other site 880591003503 hinge regions; other site 880591003504 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 880591003505 Zn binding site [ion binding]; other site 880591003506 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 880591003507 Zn binding site [ion binding]; other site 880591003508 Predicted esterase [General function prediction only]; Region: COG0400 880591003509 putative hydrolase; Provisional; Region: PRK11460 880591003510 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 880591003511 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 880591003512 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 880591003513 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 880591003514 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 880591003515 NAD binding site [chemical binding]; other site 880591003516 ATP-grasp domain; Region: ATP-grasp; pfam02222 880591003517 AIR carboxylase; Region: AIRC; pfam00731 880591003518 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 880591003519 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 880591003520 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 880591003521 putative dimer interface [polypeptide binding]; other site 880591003522 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 880591003523 Protein of unknown function (DUF763); Region: DUF763; cl00620 880591003524 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 880591003525 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880591003526 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880591003527 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880591003528 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 880591003529 putative DNA binding site [nucleotide binding]; other site 880591003530 putative Zn2+ binding site [ion binding]; other site 880591003531 AsnC family; Region: AsnC_trans_reg; pfam01037 880591003532 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 880591003533 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 880591003534 Uncharacterized conserved protein [Function unknown]; Region: COG1565 880591003535 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 880591003536 Membrane fusogenic activity; Region: BMFP; pfam04380 880591003537 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 880591003538 metal binding site 2 [ion binding]; metal-binding site 880591003539 putative DNA binding helix; other site 880591003540 metal binding site 1 [ion binding]; metal-binding site 880591003541 dimer interface [polypeptide binding]; other site 880591003542 structural Zn2+ binding site [ion binding]; other site 880591003543 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 880591003544 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 880591003545 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 880591003546 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 880591003547 ABC-ATPase subunit interface; other site 880591003548 dimer interface [polypeptide binding]; other site 880591003549 putative PBP binding regions; other site 880591003550 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 880591003551 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 880591003552 intersubunit interface [polypeptide binding]; other site 880591003553 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880591003554 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 880591003555 active site 880591003556 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 880591003557 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880591003558 Walker A/P-loop; other site 880591003559 ATP binding site [chemical binding]; other site 880591003560 Q-loop/lid; other site 880591003561 ABC transporter signature motif; other site 880591003562 Walker B; other site 880591003563 D-loop; other site 880591003564 H-loop/switch region; other site 880591003565 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880591003566 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 880591003567 ABC-ATPase subunit interface; other site 880591003568 dimer interface [polypeptide binding]; other site 880591003569 putative PBP binding regions; other site 880591003570 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880591003571 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 880591003572 ABC-ATPase subunit interface; other site 880591003573 dimer interface [polypeptide binding]; other site 880591003574 putative PBP binding regions; other site 880591003575 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 880591003576 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 880591003577 putative ligand binding residues [chemical binding]; other site 880591003578 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 880591003579 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 880591003580 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 880591003581 heme binding site [chemical binding]; other site 880591003582 ferroxidase pore; other site 880591003583 ferroxidase diiron center [ion binding]; other site 880591003584 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 880591003585 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591003586 TM-ABC transporter signature motif; other site 880591003587 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 880591003588 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 880591003589 Walker A/P-loop; other site 880591003590 ATP binding site [chemical binding]; other site 880591003591 Q-loop/lid; other site 880591003592 ABC transporter signature motif; other site 880591003593 Walker B; other site 880591003594 D-loop; other site 880591003595 H-loop/switch region; other site 880591003596 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 880591003597 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 880591003598 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880591003599 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880591003600 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 880591003601 nucleotide binding site [chemical binding]; other site 880591003602 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 880591003603 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 880591003604 hypothetical protein; Provisional; Region: PRK11171 880591003605 Cupin domain; Region: Cupin_2; pfam07883 880591003606 Cupin domain; Region: Cupin_2; pfam07883 880591003607 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 880591003608 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 880591003609 active site 880591003610 catalytic site [active] 880591003611 tetramer interface [polypeptide binding]; other site 880591003612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 880591003613 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 880591003614 active site 880591003615 homotetramer interface [polypeptide binding]; other site 880591003616 potential frameshift: common BLAST hit: gi|110678327|ref|YP_681334.1| taurine--pyruvate aminotransferase 880591003617 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 880591003618 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 880591003619 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 880591003620 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 880591003621 metal-binding site [ion binding] 880591003622 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 880591003623 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 880591003624 metal-binding site [ion binding] 880591003625 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880591003626 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 880591003627 potential frameshift: common BLAST hit: gi|119384034|ref|YP_915090.1| monovalent cation/H+ antiporter subunit A 880591003628 Tmonovalent cation:proton antiporter; Region: 2a6301s01; TIGR00940 880591003629 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880591003630 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 880591003631 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 880591003632 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 880591003633 potential frameshift: common BLAST hit: gi|146279639|ref|YP_001169797.1| monovalent cation/H+ antiporter subunit D 880591003634 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 880591003635 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 880591003636 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880591003637 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 880591003638 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 880591003639 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 880591003640 pyruvate phosphate dikinase; Provisional; Region: PRK09279 880591003641 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 880591003642 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 880591003643 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 880591003644 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 880591003645 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591003646 Coenzyme A binding pocket [chemical binding]; other site 880591003647 ketol-acid reductoisomerase; Provisional; Region: PRK05479 880591003648 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 880591003649 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 880591003650 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 880591003651 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880591003652 AsnC family; Region: AsnC_trans_reg; pfam01037 880591003653 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880591003654 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 880591003655 putative DNA binding site [nucleotide binding]; other site 880591003656 putative Zn2+ binding site [ion binding]; other site 880591003657 AsnC family; Region: AsnC_trans_reg; pfam01037 880591003658 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880591003659 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 880591003660 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 880591003661 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591003662 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591003663 DNA-binding site [nucleotide binding]; DNA binding site 880591003664 FCD domain; Region: FCD; pfam07729 880591003665 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 880591003666 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 880591003667 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 880591003668 active site 880591003669 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 880591003670 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 880591003671 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 880591003672 catalytic site [active] 880591003673 subunit interface [polypeptide binding]; other site 880591003674 Yqey-like protein; Region: YqeY; pfam09424 880591003675 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 880591003676 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 880591003677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591003678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591003679 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 880591003680 allantoate amidohydrolase; Reviewed; Region: PRK12893 880591003681 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 880591003682 active site 880591003683 metal binding site [ion binding]; metal-binding site 880591003684 dimer interface [polypeptide binding]; other site 880591003685 phenylhydantoinase; Validated; Region: PRK08323 880591003686 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 880591003687 tetramer interface [polypeptide binding]; other site 880591003688 active site 880591003689 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591003690 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591003691 Walker A/P-loop; other site 880591003692 ATP binding site [chemical binding]; other site 880591003693 Q-loop/lid; other site 880591003694 ABC transporter signature motif; other site 880591003695 Walker B; other site 880591003696 D-loop; other site 880591003697 H-loop/switch region; other site 880591003698 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591003699 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 880591003700 dimer interface [polypeptide binding]; other site 880591003701 conserved gate region; other site 880591003702 ABC-ATPase subunit interface; other site 880591003703 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591003704 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 880591003705 dimer interface [polypeptide binding]; other site 880591003706 conserved gate region; other site 880591003707 putative PBP binding loops; other site 880591003708 ABC-ATPase subunit interface; other site 880591003709 NMT1/THI5 like; Region: NMT1; pfam09084 880591003710 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 880591003711 cytidylate kinase; Provisional; Region: cmk; PRK00023 880591003712 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 880591003713 CMP-binding site; other site 880591003714 The sites determining sugar specificity; other site 880591003715 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 880591003716 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 880591003717 metal-binding site [ion binding] 880591003718 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 880591003719 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 880591003720 Soluble P-type ATPase [General function prediction only]; Region: COG4087 880591003721 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 880591003722 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 880591003723 DNA binding residues [nucleotide binding] 880591003724 dimer interface [polypeptide binding]; other site 880591003725 putative metal binding site [ion binding]; other site 880591003726 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 880591003727 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 880591003728 Walker A/P-loop; other site 880591003729 ATP binding site [chemical binding]; other site 880591003730 Q-loop/lid; other site 880591003731 ABC transporter signature motif; other site 880591003732 Walker B; other site 880591003733 D-loop; other site 880591003734 H-loop/switch region; other site 880591003735 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 880591003736 BioY family; Region: BioY; pfam02632 880591003737 Transglycosylase SLT domain; Region: SLT_2; pfam13406 880591003738 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 880591003739 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880591003740 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 880591003741 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 880591003742 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 880591003743 active site 880591003744 HIGH motif; other site 880591003745 KMSKS motif; other site 880591003746 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 880591003747 tRNA binding surface [nucleotide binding]; other site 880591003748 anticodon binding site; other site 880591003749 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 880591003750 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 880591003751 active site 880591003752 catalytic tetrad [active] 880591003753 Protein of unknown function (DUF983); Region: DUF983; cl02211 880591003754 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 880591003755 EF-hand domain pair; Region: EF_hand_5; pfam13499 880591003756 Ca2+ binding site [ion binding]; other site 880591003757 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 880591003758 EF-hand domain pair; Region: EF_hand_5; pfam13499 880591003759 Ca2+ binding site [ion binding]; other site 880591003760 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591003761 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; cl17257 880591003762 DNA binding residues [nucleotide binding] 880591003763 Heavy-metal resistance; Region: Metal_resist; pfam13801 880591003764 response regulator PleD; Reviewed; Region: pleD; PRK09581 880591003765 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 880591003766 active site 880591003767 phosphorylation site [posttranslational modification] 880591003768 dimerization interface [polypeptide binding]; other site 880591003769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 880591003770 metal binding site [ion binding]; metal-binding site 880591003771 active site 880591003772 I-site; other site 880591003773 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 880591003774 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 880591003775 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 880591003776 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 880591003777 P loop; other site 880591003778 GTP binding site [chemical binding]; other site 880591003779 Intracellular septation protein A; Region: IspA; pfam04279 880591003780 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 880591003781 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 880591003782 homodimer interface [polypeptide binding]; other site 880591003783 substrate-cofactor binding pocket; other site 880591003784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591003785 catalytic residue [active] 880591003786 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 880591003787 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 880591003788 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591003789 DNA binding site [nucleotide binding] 880591003790 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 880591003791 ligand binding site [chemical binding]; other site 880591003792 dimerization interface [polypeptide binding]; other site 880591003793 H+ Antiporter protein; Region: 2A0121; TIGR00900 880591003794 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 880591003795 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 880591003796 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880591003797 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 880591003798 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 880591003799 Walker A/P-loop; other site 880591003800 ATP binding site [chemical binding]; other site 880591003801 Q-loop/lid; other site 880591003802 ABC transporter signature motif; other site 880591003803 Walker B; other site 880591003804 D-loop; other site 880591003805 H-loop/switch region; other site 880591003806 TOBE domain; Region: TOBE_2; pfam08402 880591003807 short chain dehydrogenase; Provisional; Region: PRK07074 880591003808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591003809 NAD(P) binding site [chemical binding]; other site 880591003810 active site 880591003811 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 880591003812 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 880591003813 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 880591003814 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 880591003815 dimer interface [polypeptide binding]; other site 880591003816 conserved gate region; other site 880591003817 putative PBP binding loops; other site 880591003818 ABC-ATPase subunit interface; other site 880591003819 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591003820 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 880591003821 dimer interface [polypeptide binding]; other site 880591003822 conserved gate region; other site 880591003823 putative PBP binding loops; other site 880591003824 ABC-ATPase subunit interface; other site 880591003825 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 880591003826 homotrimer interaction site [polypeptide binding]; other site 880591003827 putative active site [active] 880591003828 dihydroorotase; Provisional; Region: PRK09237 880591003829 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 880591003830 active site 880591003831 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 880591003832 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591003833 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591003834 Walker A/P-loop; other site 880591003835 ATP binding site [chemical binding]; other site 880591003836 Q-loop/lid; other site 880591003837 ABC transporter signature motif; other site 880591003838 Walker B; other site 880591003839 D-loop; other site 880591003840 H-loop/switch region; other site 880591003841 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591003842 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 880591003843 dimer interface [polypeptide binding]; other site 880591003844 conserved gate region; other site 880591003845 ABC-ATPase subunit interface; other site 880591003846 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591003847 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591003848 Walker A/P-loop; other site 880591003849 ATP binding site [chemical binding]; other site 880591003850 Q-loop/lid; other site 880591003851 ABC transporter signature motif; other site 880591003852 Walker B; other site 880591003853 D-loop; other site 880591003854 H-loop/switch region; other site 880591003855 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591003856 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 880591003857 dimer interface [polypeptide binding]; other site 880591003858 conserved gate region; other site 880591003859 putative PBP binding loops; other site 880591003860 ABC-ATPase subunit interface; other site 880591003861 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880591003862 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 880591003863 non-specific DNA binding site [nucleotide binding]; other site 880591003864 salt bridge; other site 880591003865 sequence-specific DNA binding site [nucleotide binding]; other site 880591003866 Cupin domain; Region: Cupin_2; pfam07883 880591003867 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591003868 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 880591003869 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 880591003870 Creatinine amidohydrolase; Region: Creatininase; pfam02633 880591003871 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 880591003872 active site 880591003873 catalytic motif [active] 880591003874 Zn binding site [ion binding]; other site 880591003875 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 880591003876 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 880591003877 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 880591003878 active site 880591003879 putative substrate binding pocket [chemical binding]; other site 880591003880 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 880591003881 active site 880591003882 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 880591003883 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 880591003884 ligand binding site [chemical binding]; other site 880591003885 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 880591003886 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 880591003887 Walker A/P-loop; other site 880591003888 ATP binding site [chemical binding]; other site 880591003889 Q-loop/lid; other site 880591003890 ABC transporter signature motif; other site 880591003891 Walker B; other site 880591003892 D-loop; other site 880591003893 H-loop/switch region; other site 880591003894 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 880591003895 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 880591003896 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591003897 TM-ABC transporter signature motif; other site 880591003898 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591003899 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 880591003900 TM-ABC transporter signature motif; other site 880591003901 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 880591003902 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880591003903 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 880591003904 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 880591003905 dimer interface [polypeptide binding]; other site 880591003906 allosteric magnesium binding site [ion binding]; other site 880591003907 active site 880591003908 aspartate-rich active site metal binding site; other site 880591003909 Schiff base residues; other site 880591003910 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 880591003911 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 880591003912 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 880591003913 ATP binding site [chemical binding]; other site 880591003914 putative Mg++ binding site [ion binding]; other site 880591003915 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 880591003916 nucleotide binding region [chemical binding]; other site 880591003917 ATP-binding site [chemical binding]; other site 880591003918 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 880591003919 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 880591003920 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591003921 active site 880591003922 HIGH motif; other site 880591003923 nucleotide binding site [chemical binding]; other site 880591003924 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 880591003925 KMSKS motif; other site 880591003926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 880591003927 Peptidase M15; Region: Peptidase_M15_3; cl01194 880591003928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 880591003929 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880591003930 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 880591003931 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 880591003932 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 880591003933 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 880591003934 trimer interface [polypeptide binding]; other site 880591003935 active site 880591003936 UDP-GlcNAc binding site [chemical binding]; other site 880591003937 lipid binding site [chemical binding]; lipid-binding site 880591003938 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 880591003939 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 880591003940 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 880591003941 Walker A motif; other site 880591003942 ATP binding site [chemical binding]; other site 880591003943 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 880591003944 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 880591003945 active site 880591003946 DNA binding site [nucleotide binding] 880591003947 Int/Topo IB signature motif; other site 880591003948 shikimate kinase; Provisional; Region: PRK13946 880591003949 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 880591003950 ADP binding site [chemical binding]; other site 880591003951 magnesium binding site [ion binding]; other site 880591003952 putative shikimate binding site; other site 880591003953 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 880591003954 active site 880591003955 dimer interface [polypeptide binding]; other site 880591003956 metal binding site [ion binding]; metal-binding site 880591003957 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 880591003958 active site 880591003959 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 880591003960 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 880591003961 dimer interface [polypeptide binding]; other site 880591003962 ssDNA binding site [nucleotide binding]; other site 880591003963 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880591003964 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 880591003965 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 880591003966 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880591003967 catalytic residue [active] 880591003968 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 880591003969 Protein of unknown function (DUF563); Region: DUF563; pfam04577 880591003970 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 880591003971 IPP transferase; Region: IPPT; pfam01715 880591003972 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 880591003973 putative nucleotide binding site [chemical binding]; other site 880591003974 uridine monophosphate binding site [chemical binding]; other site 880591003975 homohexameric interface [polypeptide binding]; other site 880591003976 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 880591003977 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 880591003978 ATP binding site [chemical binding]; other site 880591003979 active site 880591003980 substrate binding site [chemical binding]; other site 880591003981 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 880591003982 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 880591003983 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 880591003984 putative active site [active] 880591003985 catalytic triad [active] 880591003986 potential frameshift: common BLAST hit: gi|99081303|ref|YP_613457.1| periplasmic sensor signal transduction histidine kinase 880591003987 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 880591003988 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 880591003989 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 880591003990 dimer interface [polypeptide binding]; other site 880591003991 phosphorylation site [posttranslational modification] 880591003992 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 880591003993 ATP binding site [chemical binding]; other site 880591003994 Mg2+ binding site [ion binding]; other site 880591003995 G-X-G motif; other site 880591003996 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880591003997 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 880591003998 active site 880591003999 phosphorylation site [posttranslational modification] 880591004000 intermolecular recognition site; other site 880591004001 dimerization interface [polypeptide binding]; other site 880591004002 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 880591004003 Walker A motif; other site 880591004004 ATP binding site [chemical binding]; other site 880591004005 Walker B motif; other site 880591004006 arginine finger; other site 880591004007 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 880591004008 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 880591004009 RNA binding site [nucleotide binding]; other site 880591004010 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 880591004011 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 880591004012 LexA repressor; Validated; Region: PRK00215 880591004013 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 880591004014 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 880591004015 Catalytic site [active] 880591004016 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 880591004017 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 880591004018 dimer interface [polypeptide binding]; other site 880591004019 putative functional site; other site 880591004020 putative MPT binding site; other site 880591004021 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 880591004022 trimer interface [polypeptide binding]; other site 880591004023 dimer interface [polypeptide binding]; other site 880591004024 putative active site [active] 880591004025 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 880591004026 active site 880591004027 ribulose/triose binding site [chemical binding]; other site 880591004028 phosphate binding site [ion binding]; other site 880591004029 substrate (anthranilate) binding pocket [chemical binding]; other site 880591004030 product (indole) binding pocket [chemical binding]; other site 880591004031 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 880591004032 ligand binding site [chemical binding]; other site 880591004033 active site 880591004034 UGI interface [polypeptide binding]; other site 880591004035 catalytic site [active] 880591004036 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 880591004037 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 880591004038 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 880591004039 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 880591004040 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 880591004041 glutamine binding [chemical binding]; other site 880591004042 catalytic triad [active] 880591004043 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 880591004044 anthranilate synthase component I; Provisional; Region: PRK13573 880591004045 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 880591004046 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 880591004047 SurA N-terminal domain; Region: SurA_N_3; cl07813 880591004048 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 880591004049 hypothetical protein; Provisional; Region: PRK07550 880591004050 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 880591004051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591004052 homodimer interface [polypeptide binding]; other site 880591004053 catalytic residue [active] 880591004054 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880591004055 active site 880591004056 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 880591004057 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 880591004058 NAD binding site [chemical binding]; other site 880591004059 homotetramer interface [polypeptide binding]; other site 880591004060 homodimer interface [polypeptide binding]; other site 880591004061 substrate binding site [chemical binding]; other site 880591004062 active site 880591004063 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 880591004064 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 880591004065 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 880591004066 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 880591004067 DNA-binding site [nucleotide binding]; DNA binding site 880591004068 RNA-binding motif; other site 880591004069 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 880591004070 DNA-binding site [nucleotide binding]; DNA binding site 880591004071 RNA-binding motif; other site 880591004072 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 880591004073 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 880591004074 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 880591004075 NADP-binding site; other site 880591004076 homotetramer interface [polypeptide binding]; other site 880591004077 substrate binding site [chemical binding]; other site 880591004078 homodimer interface [polypeptide binding]; other site 880591004079 active site 880591004080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591004081 NAD(P) binding site [chemical binding]; other site 880591004082 active site 880591004083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591004084 active site 880591004085 H-NS histone family; Region: Histone_HNS; pfam00816 880591004086 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 880591004087 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 880591004088 excinuclease ABC subunit B; Provisional; Region: PRK05298 880591004089 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 880591004090 ATP binding site [chemical binding]; other site 880591004091 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 880591004092 nucleotide binding region [chemical binding]; other site 880591004093 ATP-binding site [chemical binding]; other site 880591004094 Ultra-violet resistance protein B; Region: UvrB; pfam12344 880591004095 UvrB/uvrC motif; Region: UVR; pfam02151 880591004096 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591004097 Coenzyme A binding pocket [chemical binding]; other site 880591004098 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 880591004099 active site 880591004100 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 880591004101 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 880591004102 substrate binding pocket [chemical binding]; other site 880591004103 membrane-bound complex binding site; other site 880591004104 hinge residues; other site 880591004105 ABC-2 type transporter; Region: ABC2_membrane; cl17235 880591004106 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 880591004107 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 880591004108 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 880591004109 Walker A/P-loop; other site 880591004110 ATP binding site [chemical binding]; other site 880591004111 Q-loop/lid; other site 880591004112 ABC transporter signature motif; other site 880591004113 Walker B; other site 880591004114 D-loop; other site 880591004115 H-loop/switch region; other site 880591004116 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880591004117 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591004118 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591004119 Trp docking motif [polypeptide binding]; other site 880591004120 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 880591004121 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 880591004122 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 880591004123 trigger factor; Provisional; Region: tig; PRK01490 880591004124 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 880591004125 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 880591004126 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 880591004127 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 880591004128 active site 880591004129 metal binding site [ion binding]; metal-binding site 880591004130 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 880591004131 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 880591004132 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 880591004133 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 880591004134 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 880591004135 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 880591004136 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 880591004137 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 880591004138 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 880591004139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591004140 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 880591004141 NAD(P) binding site [chemical binding]; other site 880591004142 active site 880591004143 acyl carrier protein; Provisional; Region: acpP; PRK00982 880591004144 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 880591004145 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 880591004146 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 880591004147 active site 880591004148 YceG-like family; Region: YceG; pfam02618 880591004149 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 880591004150 dimerization interface [polypeptide binding]; other site 880591004151 Uncharacterized conserved protein [Function unknown]; Region: COG5323 880591004152 Terminase-like family; Region: Terminase_6; pfam03237 880591004153 Phage-related protein [Function unknown]; Region: COG4695 880591004154 Phage portal protein; Region: Phage_portal; pfam04860 880591004155 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 880591004156 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 880591004157 Phage capsid family; Region: Phage_capsid; pfam05065 880591004158 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 880591004159 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 880591004160 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 880591004161 Phage major tail protein 2; Region: Phage_tail_2; cl11463 880591004162 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 880591004163 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 880591004164 Phage-related minor tail protein [Function unknown]; Region: COG5281 880591004165 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 880591004166 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 880591004167 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 880591004168 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 880591004169 NlpC/P60 family; Region: NLPC_P60; cl17555 880591004170 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 880591004171 Putative phage tail protein; Region: Phage-tail_3; pfam13550 880591004172 serine acetyltransferase; Provisional; Region: cysE; PRK11132 880591004173 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 880591004174 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 880591004175 trimer interface [polypeptide binding]; other site 880591004176 active site 880591004177 substrate binding site [chemical binding]; other site 880591004178 CoA binding site [chemical binding]; other site 880591004179 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 880591004180 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 880591004181 E3 interaction surface; other site 880591004182 lipoyl attachment site [posttranslational modification]; other site 880591004183 e3 binding domain; Region: E3_binding; pfam02817 880591004184 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 880591004185 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 880591004186 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 880591004187 E3 interaction surface; other site 880591004188 lipoyl attachment site [posttranslational modification]; other site 880591004189 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 880591004190 alpha subunit interface [polypeptide binding]; other site 880591004191 TPP binding site [chemical binding]; other site 880591004192 heterodimer interface [polypeptide binding]; other site 880591004193 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880591004194 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 880591004195 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 880591004196 tetramer interface [polypeptide binding]; other site 880591004197 TPP-binding site [chemical binding]; other site 880591004198 heterodimer interface [polypeptide binding]; other site 880591004199 phosphorylation loop region [posttranslational modification] 880591004200 Septum formation initiator; Region: DivIC; pfam04977 880591004201 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 880591004202 Class I aldolases; Region: Aldolase_Class_I; cl17187 880591004203 catalytic residue [active] 880591004204 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 880591004205 Phosphoglycerate kinase; Region: PGK; pfam00162 880591004206 substrate binding site [chemical binding]; other site 880591004207 hinge regions; other site 880591004208 ADP binding site [chemical binding]; other site 880591004209 catalytic site [active] 880591004210 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 880591004211 active site 880591004212 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 880591004213 active site 880591004214 Uncharacterized conserved protein [Function unknown]; Region: COG0397 880591004215 hypothetical protein; Validated; Region: PRK00029 880591004216 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 880591004217 active site 880591004218 tetramer interface [polypeptide binding]; other site 880591004219 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 880591004220 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 880591004221 putative valine binding site [chemical binding]; other site 880591004222 dimer interface [polypeptide binding]; other site 880591004223 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 880591004224 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 880591004225 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 880591004226 PYR/PP interface [polypeptide binding]; other site 880591004227 dimer interface [polypeptide binding]; other site 880591004228 TPP binding site [chemical binding]; other site 880591004229 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 880591004230 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 880591004231 TPP-binding site [chemical binding]; other site 880591004232 dimer interface [polypeptide binding]; other site 880591004233 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 880591004234 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 880591004235 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 880591004236 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 880591004237 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 880591004238 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 880591004239 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 880591004240 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 880591004241 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 880591004242 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 880591004243 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 880591004244 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 880591004245 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 880591004246 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 880591004247 aspartate aminotransferase; Provisional; Region: PRK05764 880591004248 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 880591004249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591004250 homodimer interface [polypeptide binding]; other site 880591004251 catalytic residue [active] 880591004252 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 880591004253 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 880591004254 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 880591004255 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880591004256 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 880591004257 dimer interface [polypeptide binding]; other site 880591004258 active site 880591004259 metal binding site [ion binding]; metal-binding site 880591004260 glutathione binding site [chemical binding]; other site 880591004261 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880591004262 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 880591004263 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880591004264 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 880591004265 Peptidase family M23; Region: Peptidase_M23; pfam01551 880591004266 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 880591004267 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 880591004268 S-adenosylmethionine binding site [chemical binding]; other site 880591004269 Survival protein SurE; Region: SurE; cl00448 880591004270 amidophosphoribosyltransferase; Provisional; Region: PRK09123 880591004271 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 880591004272 active site 880591004273 tetramer interface [polypeptide binding]; other site 880591004274 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880591004275 active site 880591004276 Colicin V production protein; Region: Colicin_V; pfam02674 880591004277 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 880591004278 DNA repair protein RadA; Provisional; Region: PRK11823 880591004279 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 880591004280 Walker A motif/ATP binding site; other site 880591004281 ATP binding site [chemical binding]; other site 880591004282 Walker B motif; other site 880591004283 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 880591004284 hypothetical protein; Validated; Region: PRK09104 880591004285 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 880591004286 metal binding site [ion binding]; metal-binding site 880591004287 putative dimer interface [polypeptide binding]; other site 880591004288 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 880591004289 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 880591004290 substrate-cofactor binding pocket; other site 880591004291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591004292 catalytic residue [active] 880591004293 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 880591004294 Helix-turn-helix domain; Region: HTH_25; pfam13413 880591004295 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 880591004296 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 880591004297 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 880591004298 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 880591004299 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 880591004300 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 880591004301 catalytic residues [active] 880591004302 hypothetical protein; Provisional; Region: PRK08960 880591004303 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 880591004304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591004305 homodimer interface [polypeptide binding]; other site 880591004306 catalytic residue [active] 880591004307 AMIN domain; Region: AMIN; pfam11741 880591004308 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 880591004309 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 880591004310 active site 880591004311 metal binding site [ion binding]; metal-binding site 880591004312 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 880591004313 Transglycosylase; Region: Transgly; pfam00912 880591004314 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 880591004315 peptide chain release factor 2; Validated; Region: prfB; PRK00578 880591004316 This domain is found in peptide chain release factors; Region: PCRF; smart00937 880591004317 RF-1 domain; Region: RF-1; pfam00472 880591004318 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 880591004319 active site 880591004320 catalytic residues [active] 880591004321 DNA binding site [nucleotide binding] 880591004322 Int/Topo IB signature motif; other site 880591004323 MarR family; Region: MarR_2; cl17246 880591004324 chaperone protein DnaJ; Provisional; Region: PRK14298 880591004325 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 880591004326 DNA binding residues [nucleotide binding] 880591004327 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 880591004328 dimer interface [polypeptide binding]; other site 880591004329 Phosphopantetheine attachment site; Region: PP-binding; cl09936 880591004330 Predicted transcriptional regulator [Transcription]; Region: COG2932 880591004331 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 880591004332 Catalytic site [active] 880591004333 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 880591004334 CsbD-like; Region: CsbD; cl17424 880591004335 Protein of unknown function (DUF1441); Region: DUF1441; pfam07278 880591004336 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 880591004337 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880591004338 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 880591004339 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 880591004340 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 880591004341 oligomer interface [polypeptide binding]; other site 880591004342 active site residues [active] 880591004343 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 880591004344 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 880591004345 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 880591004346 Putative phage tail protein; Region: Phage-tail_3; pfam13550 880591004347 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 880591004348 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 880591004349 Domain of unknown function DUF20; Region: UPF0118; pfam01594 880591004350 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 880591004351 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 880591004352 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 880591004353 Protein of unknown function (DUF497); Region: DUF497; cl01108 880591004354 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 880591004355 catalytic residues [active] 880591004356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591004357 NAD(P) binding site [chemical binding]; other site 880591004358 active site 880591004359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 880591004360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591004361 ABC transporter signature motif; other site 880591004362 Walker B; other site 880591004363 D-loop; other site 880591004364 H-loop/switch region; other site 880591004365 Restriction endonuclease; Region: Mrr_cat; pfam04471 880591004366 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 880591004367 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880591004368 Walker A motif; other site 880591004369 ATP binding site [chemical binding]; other site 880591004370 Walker B motif; other site 880591004371 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 880591004372 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 880591004373 catalytic residues [active] 880591004374 catalytic nucleophile [active] 880591004375 Recombinase; Region: Recombinase; pfam07508 880591004376 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 880591004377 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 880591004378 putative PBP binding regions; other site 880591004379 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880591004380 ABC-ATPase subunit interface; other site 880591004381 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 880591004382 ABC-ATPase subunit interface; other site 880591004383 dimer interface [polypeptide binding]; other site 880591004384 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 880591004385 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 880591004386 intersubunit interface [polypeptide binding]; other site 880591004387 potential frameshift: common BLAST hit: gi|119386241|ref|YP_917296.1| siderophore-interacting protein 880591004388 Siderophore-interacting protein; Region: SIP; pfam04954 880591004389 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 880591004390 FAD binding pocket [chemical binding]; other site 880591004391 FAD binding motif [chemical binding]; other site 880591004392 phosphate binding motif [ion binding]; other site 880591004393 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 880591004394 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880591004395 Walker A/P-loop; other site 880591004396 ATP binding site [chemical binding]; other site 880591004397 Q-loop/lid; other site 880591004398 ABC transporter signature motif; other site 880591004399 Walker B; other site 880591004400 D-loop; other site 880591004401 H-loop/switch region; other site 880591004402 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 880591004403 Transcriptional regulator [Transcription]; Region: IclR; COG1414 880591004404 Bacterial transcriptional regulator; Region: IclR; pfam01614 880591004405 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 880591004406 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 880591004407 active site 880591004408 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 880591004409 non-prolyl cis peptide bond; other site 880591004410 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880591004411 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591004412 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 880591004413 DNA binding residues [nucleotide binding] 880591004414 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 880591004415 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 880591004416 trimer interface [polypeptide binding]; other site 880591004417 active site 880591004418 substrate binding site [chemical binding]; other site 880591004419 CoA binding site [chemical binding]; other site 880591004420 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 880591004421 non-specific DNA binding site [nucleotide binding]; other site 880591004422 salt bridge; other site 880591004423 sequence-specific DNA binding site [nucleotide binding]; other site 880591004424 DoxX-like family; Region: DoxX_2; pfam13564 880591004425 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 880591004426 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 880591004427 dimerization interface [polypeptide binding]; other site 880591004428 putative ATP binding site [chemical binding]; other site 880591004429 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 880591004430 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 880591004431 active site 880591004432 substrate binding site [chemical binding]; other site 880591004433 cosubstrate binding site; other site 880591004434 catalytic site [active] 880591004435 ribonuclease D; Region: rnd; TIGR01388 880591004436 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 880591004437 catalytic site [active] 880591004438 putative active site [active] 880591004439 putative substrate binding site [chemical binding]; other site 880591004440 HRDC domain; Region: HRDC; pfam00570 880591004441 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 880591004442 OsmC-like protein; Region: OsmC; cl00767 880591004443 Transcriptional regulators [Transcription]; Region: FadR; COG2186 880591004444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591004445 DNA-binding site [nucleotide binding]; DNA binding site 880591004446 FCD domain; Region: FCD; pfam07729 880591004447 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 880591004448 putative hydrophobic ligand binding site [chemical binding]; other site 880591004449 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 880591004450 heme-binding site [chemical binding]; other site 880591004451 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 880591004452 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 880591004453 dimer interface [polypeptide binding]; other site 880591004454 putative CheW interface [polypeptide binding]; other site 880591004455 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 880591004456 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 880591004457 putative acyl-acceptor binding pocket; other site 880591004458 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 880591004459 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 880591004460 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 880591004461 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 880591004462 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 880591004463 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 880591004464 active site 880591004465 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 880591004466 Competence-damaged protein; Region: CinA; cl00666 880591004467 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 880591004468 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 880591004469 tetramer interfaces [polypeptide binding]; other site 880591004470 binuclear metal-binding site [ion binding]; other site 880591004471 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 880591004472 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 880591004473 substrate binding site; other site 880591004474 dimer interface; other site 880591004475 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 880591004476 homotrimer interaction site [polypeptide binding]; other site 880591004477 zinc binding site [ion binding]; other site 880591004478 CDP-binding sites; other site 880591004479 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 880591004480 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 880591004481 FMN binding site [chemical binding]; other site 880591004482 active site 880591004483 catalytic residues [active] 880591004484 substrate binding site [chemical binding]; other site 880591004485 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 880591004486 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 880591004487 dimer interface [polypeptide binding]; other site 880591004488 phosphorylation site [posttranslational modification] 880591004489 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 880591004490 ATP binding site [chemical binding]; other site 880591004491 Mg2+ binding site [ion binding]; other site 880591004492 G-X-G motif; other site 880591004493 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 880591004494 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 880591004495 active site 880591004496 phosphorylation site [posttranslational modification] 880591004497 intermolecular recognition site; other site 880591004498 dimerization interface [polypeptide binding]; other site 880591004499 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 880591004500 Walker A motif; other site 880591004501 ATP binding site [chemical binding]; other site 880591004502 Walker B motif; other site 880591004503 arginine finger; other site 880591004504 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 880591004505 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 880591004506 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 880591004507 dimerization interface [polypeptide binding]; other site 880591004508 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 880591004509 dimer interface [polypeptide binding]; other site 880591004510 phosphorylation site [posttranslational modification] 880591004511 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 880591004512 ATP binding site [chemical binding]; other site 880591004513 Mg2+ binding site [ion binding]; other site 880591004514 G-X-G motif; other site 880591004515 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880591004516 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 880591004517 active site 880591004518 phosphorylation site [posttranslational modification] 880591004519 intermolecular recognition site; other site 880591004520 dimerization interface [polypeptide binding]; other site 880591004521 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 880591004522 Walker B motif; other site 880591004523 arginine finger; other site 880591004524 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 880591004525 Domain of unknown function (DUF305); Region: DUF305; cl17794 880591004526 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 880591004527 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 880591004528 dimerization interface [polypeptide binding]; other site 880591004529 metabolite-proton symporter; Region: 2A0106; TIGR00883 880591004530 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591004531 putative substrate translocation pore; other site 880591004532 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 880591004533 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 880591004534 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 880591004535 HlyD family secretion protein; Region: HlyD_3; pfam13437 880591004536 osmolarity response regulator; Provisional; Region: ompR; PRK09468 880591004537 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 880591004538 active site 880591004539 phosphorylation site [posttranslational modification] 880591004540 intermolecular recognition site; other site 880591004541 dimerization interface [polypeptide binding]; other site 880591004542 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 880591004543 DNA binding site [nucleotide binding] 880591004544 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 880591004545 dimer interface [polypeptide binding]; other site 880591004546 phosphorylation site [posttranslational modification] 880591004547 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 880591004548 ATP binding site [chemical binding]; other site 880591004549 Mg2+ binding site [ion binding]; other site 880591004550 G-X-G motif; other site 880591004551 Protein of unknown function (DUF563); Region: DUF563; pfam04577 880591004552 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 880591004553 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 880591004554 FAD binding pocket [chemical binding]; other site 880591004555 FAD binding motif [chemical binding]; other site 880591004556 phosphate binding motif [ion binding]; other site 880591004557 NAD binding pocket [chemical binding]; other site 880591004558 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 880591004559 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 880591004560 N-terminal plug; other site 880591004561 ligand-binding site [chemical binding]; other site 880591004562 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 880591004563 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 880591004564 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 880591004565 Protein of unknown function, DUF399; Region: DUF399; pfam04187 880591004566 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 880591004567 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 880591004568 FAD binding pocket [chemical binding]; other site 880591004569 FAD binding motif [chemical binding]; other site 880591004570 phosphate binding motif [ion binding]; other site 880591004571 NAD binding pocket [chemical binding]; other site 880591004572 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 880591004573 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 880591004574 active site 880591004575 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 880591004576 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 880591004577 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 880591004578 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880591004579 catalytic residue [active] 880591004580 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 880591004581 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 880591004582 non-specific DNA binding site [nucleotide binding]; other site 880591004583 salt bridge; other site 880591004584 sequence-specific DNA binding site [nucleotide binding]; other site 880591004585 Cupin domain; Region: Cupin_2; pfam07883 880591004586 Predicted amidohydrolase [General function prediction only]; Region: COG0388 880591004587 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 880591004588 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 880591004589 Predicted amidohydrolase [General function prediction only]; Region: COG0388 880591004590 active site 880591004591 catalytic triad [active] 880591004592 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880591004593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591004594 Walker A/P-loop; other site 880591004595 ATP binding site [chemical binding]; other site 880591004596 Q-loop/lid; other site 880591004597 ABC transporter signature motif; other site 880591004598 Walker B; other site 880591004599 D-loop; other site 880591004600 H-loop/switch region; other site 880591004601 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 880591004602 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 880591004603 dimer interface [polypeptide binding]; other site 880591004604 conserved gate region; other site 880591004605 putative PBP binding loops; other site 880591004606 ABC-ATPase subunit interface; other site 880591004607 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 880591004608 putative PBP binding loops; other site 880591004609 dimer interface [polypeptide binding]; other site 880591004610 ABC-ATPase subunit interface; other site 880591004611 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 880591004612 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880591004613 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 880591004614 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 880591004615 Cu(I) binding site [ion binding]; other site 880591004616 Protein of unknown function (DUF461); Region: DUF461; pfam04314 880591004617 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 880591004618 Chromate transporter; Region: Chromate_transp; pfam02417 880591004619 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 880591004620 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 880591004621 OpgC protein; Region: OpgC_C; cl17858 880591004622 Entericidin EcnA/B family; Region: Entericidin; cl02322 880591004623 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 880591004624 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 880591004625 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 880591004626 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 880591004627 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 880591004628 active site 880591004629 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 880591004630 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 880591004631 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 880591004632 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 880591004633 TM-ABC transporter signature motif; other site 880591004634 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 880591004635 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591004636 TM-ABC transporter signature motif; other site 880591004637 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 880591004638 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 880591004639 Walker A/P-loop; other site 880591004640 ATP binding site [chemical binding]; other site 880591004641 Q-loop/lid; other site 880591004642 ABC transporter signature motif; other site 880591004643 Walker B; other site 880591004644 D-loop; other site 880591004645 H-loop/switch region; other site 880591004646 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 880591004647 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 880591004648 Walker A/P-loop; other site 880591004649 ATP binding site [chemical binding]; other site 880591004650 Q-loop/lid; other site 880591004651 ABC transporter signature motif; other site 880591004652 Walker B; other site 880591004653 D-loop; other site 880591004654 H-loop/switch region; other site 880591004655 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880591004656 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 880591004657 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 880591004658 PAS domain; Region: PAS_5; pfam07310 880591004659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 880591004660 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 880591004661 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 880591004662 catalytic site [active] 880591004663 G-X2-G-X-G-K; other site 880591004664 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 880591004665 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 880591004666 dimer interface [polypeptide binding]; other site 880591004667 phosphorylation site [posttranslational modification] 880591004668 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 880591004669 ATP binding site [chemical binding]; other site 880591004670 Mg2+ binding site [ion binding]; other site 880591004671 G-X-G motif; other site 880591004672 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 880591004673 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 880591004674 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 880591004675 Predicted permeases [General function prediction only]; Region: RarD; COG2962 880591004676 EamA-like transporter family; Region: EamA; pfam00892 880591004677 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 880591004678 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 880591004679 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880591004680 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 880591004681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591004682 Walker A/P-loop; other site 880591004683 ATP binding site [chemical binding]; other site 880591004684 Q-loop/lid; other site 880591004685 ABC transporter signature motif; other site 880591004686 Walker B; other site 880591004687 D-loop; other site 880591004688 H-loop/switch region; other site 880591004689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 880591004690 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591004691 active site 880591004692 PQQ-like domain; Region: PQQ_2; pfam13360 880591004693 Trp docking motif [polypeptide binding]; other site 880591004694 seryl-tRNA synthetase; Provisional; Region: PRK05431 880591004695 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 880591004696 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 880591004697 dimer interface [polypeptide binding]; other site 880591004698 active site 880591004699 motif 1; other site 880591004700 motif 2; other site 880591004701 motif 3; other site 880591004702 Preprotein translocase subunit; Region: YajC; pfam02699 880591004703 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 880591004704 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 880591004705 potential frameshift: common BLAST hit: gi|119384156|ref|YP_915212.1| preprotein translocase subunit SecF 880591004706 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 880591004707 Protein export membrane protein; Region: SecD_SecF; cl14618 880591004708 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 880591004709 Protein export membrane protein; Region: SecD_SecF; cl14618 880591004710 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 880591004711 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591004712 Walker A/P-loop; other site 880591004713 ATP binding site [chemical binding]; other site 880591004714 Q-loop/lid; other site 880591004715 ABC transporter signature motif; other site 880591004716 Walker B; other site 880591004717 D-loop; other site 880591004718 H-loop/switch region; other site 880591004719 heme exporter protein CcmB; Region: ccmB; TIGR01190 880591004720 heme exporter protein CcmC; Region: ccmC; TIGR01191 880591004721 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 880591004722 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 880591004723 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880591004724 catalytic residues [active] 880591004725 central insert; other site 880591004726 aconitate hydratase; Validated; Region: PRK09277 880591004727 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 880591004728 substrate binding site [chemical binding]; other site 880591004729 ligand binding site [chemical binding]; other site 880591004730 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 880591004731 substrate binding site [chemical binding]; other site 880591004732 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 880591004733 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 880591004734 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 880591004735 trimer interface [polypeptide binding]; other site 880591004736 active site 880591004737 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 880591004738 trimer interface [polypeptide binding]; other site 880591004739 active site 880591004740 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 880591004741 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 880591004742 DNA binding residues [nucleotide binding] 880591004743 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 880591004744 IHF dimer interface [polypeptide binding]; other site 880591004745 IHF - DNA interface [nucleotide binding]; other site 880591004746 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 880591004747 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 880591004748 dimer interface [polypeptide binding]; other site 880591004749 active site 880591004750 CoA binding pocket [chemical binding]; other site 880591004751 putative phosphate acyltransferase; Provisional; Region: PRK05331 880591004752 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 880591004753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 880591004754 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 880591004755 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 880591004756 methionine sulfoxide reductase B; Provisional; Region: PRK00222 880591004757 SelR domain; Region: SelR; pfam01641 880591004758 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 880591004759 ABC transporter ATPase component; Reviewed; Region: PRK11147 880591004760 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591004761 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591004762 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 880591004763 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 880591004764 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 880591004765 homodimer interface [polypeptide binding]; other site 880591004766 metal binding site [ion binding]; metal-binding site 880591004767 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 880591004768 homodimer interface [polypeptide binding]; other site 880591004769 active site 880591004770 putative chemical substrate binding site [chemical binding]; other site 880591004771 metal binding site [ion binding]; metal-binding site 880591004772 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880591004773 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 880591004774 metal binding site [ion binding]; metal-binding site 880591004775 putative dimer interface [polypeptide binding]; other site 880591004776 formimidoylglutamase; Provisional; Region: PRK13775 880591004777 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 880591004778 oligomer interface [polypeptide binding]; other site 880591004779 putative active site [active] 880591004780 Mn binding site [ion binding]; other site 880591004781 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 880591004782 alanine racemase; Reviewed; Region: alr; PRK00053 880591004783 active site 880591004784 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880591004785 dimer interface [polypeptide binding]; other site 880591004786 substrate binding site [chemical binding]; other site 880591004787 catalytic residues [active] 880591004788 replicative DNA helicase; Provisional; Region: PRK09165 880591004789 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 880591004790 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 880591004791 Walker A motif; other site 880591004792 ATP binding site [chemical binding]; other site 880591004793 Walker B motif; other site 880591004794 DNA binding loops [nucleotide binding] 880591004795 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880591004796 active site 880591004797 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 880591004798 active site 880591004799 substrate binding pocket [chemical binding]; other site 880591004800 dimer interface [polypeptide binding]; other site 880591004801 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 880591004802 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 880591004803 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 880591004804 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 880591004805 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 880591004806 FAD binding pocket [chemical binding]; other site 880591004807 FAD binding motif [chemical binding]; other site 880591004808 phosphate binding motif [ion binding]; other site 880591004809 beta-alpha-beta structure motif; other site 880591004810 NAD binding pocket [chemical binding]; other site 880591004811 Cation efflux family; Region: Cation_efflux; cl00316 880591004812 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 880591004813 substrate binding site [chemical binding]; other site 880591004814 dimer interface [polypeptide binding]; other site 880591004815 catalytic triad [active] 880591004816 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 880591004817 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 880591004818 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 880591004819 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 880591004820 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 880591004821 Found in ATP-dependent protease La (LON); Region: LON; smart00464 880591004822 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 880591004823 Walker A motif; other site 880591004824 ATP binding site [chemical binding]; other site 880591004825 Walker B motif; other site 880591004826 arginine finger; other site 880591004827 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 880591004828 bacterial Hfq-like; Region: Hfq; cd01716 880591004829 hexamer interface [polypeptide binding]; other site 880591004830 Sm1 motif; other site 880591004831 RNA binding site [nucleotide binding]; other site 880591004832 Sm2 motif; other site 880591004833 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 880591004834 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 880591004835 HflX GTPase family; Region: HflX; cd01878 880591004836 G1 box; other site 880591004837 GTP/Mg2+ binding site [chemical binding]; other site 880591004838 Switch I region; other site 880591004839 G2 box; other site 880591004840 G3 box; other site 880591004841 Switch II region; other site 880591004842 G4 box; other site 880591004843 G5 box; other site 880591004844 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591004845 putative substrate translocation pore; other site 880591004846 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 880591004847 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 880591004848 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 880591004849 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 880591004850 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 880591004851 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880591004852 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 880591004853 substrate binding site [chemical binding]; other site 880591004854 ATP binding site [chemical binding]; other site 880591004855 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 880591004856 rRNA interaction site [nucleotide binding]; other site 880591004857 S8 interaction site; other site 880591004858 putative laminin-1 binding site; other site 880591004859 elongation factor Ts; Provisional; Region: tsf; PRK09377 880591004860 UBA/TS-N domain; Region: UBA; pfam00627 880591004861 Elongation factor TS; Region: EF_TS; pfam00889 880591004862 Elongation factor TS; Region: EF_TS; pfam00889 880591004863 NMT1/THI5 like; Region: NMT1; pfam09084 880591004864 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 880591004865 substrate binding pocket [chemical binding]; other site 880591004866 membrane-bound complex binding site; other site 880591004867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 880591004868 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 880591004869 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591004870 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591004871 Walker A/P-loop; other site 880591004872 ATP binding site [chemical binding]; other site 880591004873 Q-loop/lid; other site 880591004874 ABC transporter signature motif; other site 880591004875 Walker B; other site 880591004876 D-loop; other site 880591004877 H-loop/switch region; other site 880591004878 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591004879 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 880591004880 dimer interface [polypeptide binding]; other site 880591004881 conserved gate region; other site 880591004882 putative PBP binding loops; other site 880591004883 ABC-ATPase subunit interface; other site 880591004884 classical (c) SDRs; Region: SDR_c; cd05233 880591004885 NAD(P) binding site [chemical binding]; other site 880591004886 active site 880591004887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591004888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591004889 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 880591004890 putative effector binding pocket; other site 880591004891 dimerization interface [polypeptide binding]; other site 880591004892 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 880591004893 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 880591004894 N-terminal plug; other site 880591004895 ligand-binding site [chemical binding]; other site 880591004896 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 880591004897 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 880591004898 NAD binding pocket [chemical binding]; other site 880591004899 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 880591004900 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 880591004901 intersubunit interface [polypeptide binding]; other site 880591004902 EamA-like transporter family; Region: EamA; pfam00892 880591004903 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 880591004904 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880591004905 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 880591004906 putative DNA binding site [nucleotide binding]; other site 880591004907 putative Zn2+ binding site [ion binding]; other site 880591004908 AsnC family; Region: AsnC_trans_reg; pfam01037 880591004909 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591004910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591004911 DNA-binding site [nucleotide binding]; DNA binding site 880591004912 FCD domain; Region: FCD; pfam07729 880591004913 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 880591004914 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 880591004915 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 880591004916 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 880591004917 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591004918 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591004919 Walker A/P-loop; other site 880591004920 ATP binding site [chemical binding]; other site 880591004921 Q-loop/lid; other site 880591004922 ABC transporter signature motif; other site 880591004923 Walker B; other site 880591004924 D-loop; other site 880591004925 H-loop/switch region; other site 880591004926 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591004927 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591004928 Walker A/P-loop; other site 880591004929 ATP binding site [chemical binding]; other site 880591004930 Q-loop/lid; other site 880591004931 ABC transporter signature motif; other site 880591004932 Walker B; other site 880591004933 D-loop; other site 880591004934 H-loop/switch region; other site 880591004935 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591004936 Uncharacterized conserved protein [Function unknown]; Region: COG5476 880591004937 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 880591004938 MlrC C-terminus; Region: MlrC_C; pfam07171 880591004939 MarR family; Region: MarR_2; pfam12802 880591004940 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880591004941 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880591004942 nucleotide binding site [chemical binding]; other site 880591004943 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880591004944 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591004945 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591004946 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591004947 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 880591004948 dimer interface [polypeptide binding]; other site 880591004949 conserved gate region; other site 880591004950 putative PBP binding loops; other site 880591004951 ABC-ATPase subunit interface; other site 880591004952 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591004953 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 880591004954 dimer interface [polypeptide binding]; other site 880591004955 conserved gate region; other site 880591004956 putative PBP binding loops; other site 880591004957 ABC-ATPase subunit interface; other site 880591004958 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880591004959 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 880591004960 nucleotide binding site [chemical binding]; other site 880591004961 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880591004962 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880591004963 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 880591004964 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 880591004965 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 880591004966 tetrameric interface [polypeptide binding]; other site 880591004967 NAD binding site [chemical binding]; other site 880591004968 catalytic residues [active] 880591004969 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 880591004970 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 880591004971 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 880591004972 PA14 domain; Region: PA14; cl08459 880591004973 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 880591004974 amidase; Provisional; Region: PRK07042 880591004975 Amidase; Region: Amidase; cl11426 880591004976 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591004977 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591004978 Walker A/P-loop; other site 880591004979 ATP binding site [chemical binding]; other site 880591004980 Q-loop/lid; other site 880591004981 ABC transporter signature motif; other site 880591004982 Walker B; other site 880591004983 D-loop; other site 880591004984 H-loop/switch region; other site 880591004985 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591004986 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591004987 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591004988 Walker A/P-loop; other site 880591004989 ATP binding site [chemical binding]; other site 880591004990 Q-loop/lid; other site 880591004991 ABC transporter signature motif; other site 880591004992 Walker B; other site 880591004993 D-loop; other site 880591004994 H-loop/switch region; other site 880591004995 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591004996 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591004997 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 880591004998 dimer interface [polypeptide binding]; other site 880591004999 conserved gate region; other site 880591005000 putative PBP binding loops; other site 880591005001 ABC-ATPase subunit interface; other site 880591005002 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591005003 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 880591005004 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 880591005005 dimer interface [polypeptide binding]; other site 880591005006 conserved gate region; other site 880591005007 putative PBP binding loops; other site 880591005008 ABC-ATPase subunit interface; other site 880591005009 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_6; cd08494 880591005010 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591005011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591005012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591005013 LysR substrate binding domain; Region: LysR_substrate; pfam03466 880591005014 dimerization interface [polypeptide binding]; other site 880591005015 aminotransferase; Validated; Region: PRK07678 880591005016 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 880591005017 inhibitor-cofactor binding pocket; inhibition site 880591005018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591005019 catalytic residue [active] 880591005020 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 880591005021 sequence-specific DNA binding site [nucleotide binding]; other site 880591005022 salt bridge; other site 880591005023 Cupin domain; Region: Cupin_2; pfam07883 880591005024 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 880591005025 putative active site pocket [active] 880591005026 cleavage site 880591005027 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 880591005028 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 880591005029 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880591005030 catalytic residue [active] 880591005031 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 880591005032 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 880591005033 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 880591005034 FeS assembly ATPase SufC; Region: sufC; TIGR01978 880591005035 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 880591005036 Walker A/P-loop; other site 880591005037 ATP binding site [chemical binding]; other site 880591005038 Q-loop/lid; other site 880591005039 ABC transporter signature motif; other site 880591005040 Walker B; other site 880591005041 D-loop; other site 880591005042 H-loop/switch region; other site 880591005043 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 880591005044 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 880591005045 putative ABC transporter; Region: ycf24; CHL00085 880591005046 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 880591005047 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 880591005048 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880591005049 catalytic residue [active] 880591005050 Transcriptional regulator; Region: Rrf2; cl17282 880591005051 Rrf2 family protein; Region: rrf2_super; TIGR00738 880591005052 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 880591005053 HD domain; Region: HD_3; pfam13023 880591005054 Uncharacterized conserved protein [Function unknown]; Region: COG1284 880591005055 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 880591005056 Uncharacterized conserved protein [Function unknown]; Region: COG1284 880591005057 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 880591005058 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 880591005059 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 880591005060 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 880591005061 G1 box; other site 880591005062 putative GEF interaction site [polypeptide binding]; other site 880591005063 GTP/Mg2+ binding site [chemical binding]; other site 880591005064 Switch I region; other site 880591005065 G2 box; other site 880591005066 G3 box; other site 880591005067 Switch II region; other site 880591005068 G4 box; other site 880591005069 G5 box; other site 880591005070 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 880591005071 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 880591005072 Uncharacterized conserved protein [Function unknown]; Region: COG5470 880591005073 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 880591005074 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 880591005075 motif 1; other site 880591005076 active site 880591005077 motif 2; other site 880591005078 motif 3; other site 880591005079 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 880591005080 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 880591005081 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880591005082 Walker A motif; other site 880591005083 ATP binding site [chemical binding]; other site 880591005084 hexamer interface [polypeptide binding]; other site 880591005085 Walker B motif; other site 880591005086 HAMP domain; Region: HAMP; pfam00672 880591005087 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 880591005088 dimer interface [polypeptide binding]; other site 880591005089 phosphorylation site [posttranslational modification] 880591005090 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 880591005091 ATP binding site [chemical binding]; other site 880591005092 Mg2+ binding site [ion binding]; other site 880591005093 G-X-G motif; other site 880591005094 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 880591005095 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005096 Walker A/P-loop; other site 880591005097 ATP binding site [chemical binding]; other site 880591005098 Q-loop/lid; other site 880591005099 ABC transporter signature motif; other site 880591005100 Walker B; other site 880591005101 D-loop; other site 880591005102 H-loop/switch region; other site 880591005103 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591005104 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880591005105 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005106 Walker A/P-loop; other site 880591005107 ATP binding site [chemical binding]; other site 880591005108 Q-loop/lid; other site 880591005109 ABC transporter signature motif; other site 880591005110 Walker B; other site 880591005111 D-loop; other site 880591005112 H-loop/switch region; other site 880591005113 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591005114 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591005115 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 880591005116 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 880591005117 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 880591005118 dimer interface [polypeptide binding]; other site 880591005119 conserved gate region; other site 880591005120 putative PBP binding loops; other site 880591005121 ABC-ATPase subunit interface; other site 880591005122 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591005123 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 880591005124 dimer interface [polypeptide binding]; other site 880591005125 conserved gate region; other site 880591005126 putative PBP binding loops; other site 880591005127 ABC-ATPase subunit interface; other site 880591005128 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 880591005129 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 880591005130 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 880591005131 active site 880591005132 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 880591005133 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 880591005134 recombination factor protein RarA; Reviewed; Region: PRK13342 880591005135 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 880591005136 Walker A motif; other site 880591005137 ATP binding site [chemical binding]; other site 880591005138 Walker B motif; other site 880591005139 arginine finger; other site 880591005140 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 880591005141 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 880591005142 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 880591005143 catalytic Zn binding site [ion binding]; other site 880591005144 NAD(P) binding site [chemical binding]; other site 880591005145 structural Zn binding site [ion binding]; other site 880591005146 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 880591005147 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 880591005148 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591005149 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005150 Walker A/P-loop; other site 880591005151 ATP binding site [chemical binding]; other site 880591005152 Q-loop/lid; other site 880591005153 ABC transporter signature motif; other site 880591005154 Walker B; other site 880591005155 D-loop; other site 880591005156 H-loop/switch region; other site 880591005157 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005158 Walker A/P-loop; other site 880591005159 ATP binding site [chemical binding]; other site 880591005160 Q-loop/lid; other site 880591005161 ABC transporter signature motif; other site 880591005162 Walker B; other site 880591005163 D-loop; other site 880591005164 H-loop/switch region; other site 880591005165 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591005166 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591005167 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 880591005168 dimer interface [polypeptide binding]; other site 880591005169 conserved gate region; other site 880591005170 putative PBP binding loops; other site 880591005171 ABC-ATPase subunit interface; other site 880591005172 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591005173 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 880591005174 dimer interface [polypeptide binding]; other site 880591005175 conserved gate region; other site 880591005176 putative PBP binding loops; other site 880591005177 ABC-ATPase subunit interface; other site 880591005178 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591005179 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591005180 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 880591005181 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 880591005182 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591005183 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005184 Walker A/P-loop; other site 880591005185 ATP binding site [chemical binding]; other site 880591005186 Q-loop/lid; other site 880591005187 ABC transporter signature motif; other site 880591005188 Walker B; other site 880591005189 D-loop; other site 880591005190 H-loop/switch region; other site 880591005191 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591005192 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005193 Walker A/P-loop; other site 880591005194 ATP binding site [chemical binding]; other site 880591005195 Q-loop/lid; other site 880591005196 ABC transporter signature motif; other site 880591005197 Walker B; other site 880591005198 D-loop; other site 880591005199 H-loop/switch region; other site 880591005200 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591005201 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591005202 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 880591005203 dimer interface [polypeptide binding]; other site 880591005204 conserved gate region; other site 880591005205 putative PBP binding loops; other site 880591005206 ABC-ATPase subunit interface; other site 880591005207 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591005208 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 880591005209 dimer interface [polypeptide binding]; other site 880591005210 conserved gate region; other site 880591005211 putative PBP binding loops; other site 880591005212 ABC-ATPase subunit interface; other site 880591005213 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591005214 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_13; cd08517 880591005215 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 880591005216 dimer interface [polypeptide binding]; other site 880591005217 FMN binding site [chemical binding]; other site 880591005218 NADPH bind site [chemical binding]; other site 880591005219 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 880591005220 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591005221 putative substrate translocation pore; other site 880591005222 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591005223 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591005224 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 880591005225 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 880591005226 dimer interface [polypeptide binding]; other site 880591005227 phosphorylation site [posttranslational modification] 880591005228 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 880591005229 ATP binding site [chemical binding]; other site 880591005230 Mg2+ binding site [ion binding]; other site 880591005231 G-X-G motif; other site 880591005232 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880591005233 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 880591005234 active site 880591005235 phosphorylation site [posttranslational modification] 880591005236 intermolecular recognition site; other site 880591005237 dimerization interface [polypeptide binding]; other site 880591005238 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 880591005239 Walker A motif; other site 880591005240 ATP binding site [chemical binding]; other site 880591005241 Walker B motif; other site 880591005242 arginine finger; other site 880591005243 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 880591005244 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 880591005245 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 880591005246 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 880591005247 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 880591005248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 880591005249 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 880591005250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591005251 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 880591005252 dimerization interface [polypeptide binding]; other site 880591005253 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880591005254 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 880591005255 metal binding site [ion binding]; metal-binding site 880591005256 putative dimer interface [polypeptide binding]; other site 880591005257 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_16; cd08502 880591005258 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591005259 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591005260 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 880591005261 dimer interface [polypeptide binding]; other site 880591005262 conserved gate region; other site 880591005263 ABC-ATPase subunit interface; other site 880591005264 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591005265 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 880591005266 dimer interface [polypeptide binding]; other site 880591005267 conserved gate region; other site 880591005268 ABC-ATPase subunit interface; other site 880591005269 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 880591005270 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005271 Walker A/P-loop; other site 880591005272 ATP binding site [chemical binding]; other site 880591005273 Q-loop/lid; other site 880591005274 ABC transporter signature motif; other site 880591005275 Walker B; other site 880591005276 D-loop; other site 880591005277 H-loop/switch region; other site 880591005278 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591005279 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005280 Walker A/P-loop; other site 880591005281 ATP binding site [chemical binding]; other site 880591005282 Q-loop/lid; other site 880591005283 ABC transporter signature motif; other site 880591005284 Walker B; other site 880591005285 D-loop; other site 880591005286 H-loop/switch region; other site 880591005287 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591005288 D-glutamate deacylase; Validated; Region: PRK09061 880591005289 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 880591005290 active site 880591005291 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 880591005292 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 880591005293 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 880591005294 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 880591005295 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 880591005296 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591005297 Walker A/P-loop; other site 880591005298 ATP binding site [chemical binding]; other site 880591005299 Q-loop/lid; other site 880591005300 ABC transporter signature motif; other site 880591005301 Walker B; other site 880591005302 D-loop; other site 880591005303 H-loop/switch region; other site 880591005304 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 880591005305 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591005306 potential frameshift: common BLAST hit: gi|256378747|ref|YP_003102407.1| amidohydrolase 880591005307 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 880591005308 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 880591005309 active site 880591005310 Predicted transcriptional regulators [Transcription]; Region: COG1733 880591005311 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 880591005312 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 880591005313 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 880591005314 metal binding site [ion binding]; metal-binding site 880591005315 active site 880591005316 I-site; other site 880591005317 alanine transaminase; Region: PLN02368 880591005318 RNA polymerase sigma factor; Provisional; Region: PRK12514 880591005319 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591005320 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 880591005321 Anti-sigma-K factor rskA; Region: RskA; pfam10099 880591005322 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 880591005323 Fasciclin domain; Region: Fasciclin; pfam02469 880591005324 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 880591005325 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 880591005326 DNA-binding site [nucleotide binding]; DNA binding site 880591005327 RNA-binding motif; other site 880591005328 Protein of unknown function (DUF982); Region: DUF982; pfam06169 880591005329 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 880591005330 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 880591005331 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 880591005332 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 880591005333 CAP-like domain; other site 880591005334 active site 880591005335 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; cl00148 880591005336 primary dimer interface [polypeptide binding]; other site 880591005337 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880591005338 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880591005339 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880591005340 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880591005341 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880591005342 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 880591005343 Glucose inhibited division protein A; Region: GIDA; pfam01134 880591005344 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591005345 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 880591005346 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 880591005347 trimerization site [polypeptide binding]; other site 880591005348 active site 880591005349 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880591005350 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 880591005351 active site 880591005352 phosphorylation site [posttranslational modification] 880591005353 intermolecular recognition site; other site 880591005354 dimerization interface [polypeptide binding]; other site 880591005355 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 880591005356 DNA binding site [nucleotide binding] 880591005357 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 880591005358 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 880591005359 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 880591005360 Ligand Binding Site [chemical binding]; other site 880591005361 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 880591005362 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 880591005363 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 880591005364 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 880591005365 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 880591005366 active site 880591005367 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 880591005368 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 880591005369 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 880591005370 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 880591005371 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880591005372 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880591005373 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 880591005374 Surface antigen; Region: Bac_surface_Ag; pfam01103 880591005375 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 880591005376 zinc metallopeptidase RseP; Provisional; Region: PRK10779 880591005377 active site 880591005378 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 880591005379 protein binding site [polypeptide binding]; other site 880591005380 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 880591005381 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 880591005382 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 880591005383 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 880591005384 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 880591005385 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 880591005386 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 880591005387 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 880591005388 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 880591005389 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 880591005390 catalytic residue [active] 880591005391 putative FPP diphosphate binding site; other site 880591005392 putative FPP binding hydrophobic cleft; other site 880591005393 dimer interface [polypeptide binding]; other site 880591005394 putative IPP diphosphate binding site; other site 880591005395 ribosome recycling factor; Reviewed; Region: frr; PRK00083 880591005396 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 880591005397 hinge region; other site 880591005398 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591005399 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591005400 Walker A/P-loop; other site 880591005401 ATP binding site [chemical binding]; other site 880591005402 Q-loop/lid; other site 880591005403 ABC transporter signature motif; other site 880591005404 Walker B; other site 880591005405 D-loop; other site 880591005406 H-loop/switch region; other site 880591005407 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591005408 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 880591005409 dimer interface [polypeptide binding]; other site 880591005410 conserved gate region; other site 880591005411 putative PBP binding loops; other site 880591005412 ABC-ATPase subunit interface; other site 880591005413 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880591005414 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 880591005415 metal binding site [ion binding]; metal-binding site 880591005416 putative dimer interface [polypeptide binding]; other site 880591005417 NMT1/THI5 like; Region: NMT1; pfam09084 880591005418 ATP phosphoribosyltransferase; Region: HisG; cl15266 880591005419 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 880591005420 membrane-bound complex binding site; other site 880591005421 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 880591005422 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591005423 putative substrate translocation pore; other site 880591005424 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591005425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591005426 DNA-binding site [nucleotide binding]; DNA binding site 880591005427 FCD domain; Region: FCD; pfam07729 880591005428 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 880591005429 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 880591005430 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 880591005431 CMD domain protein, Avi_7170 family; Region: CMD_Avi_7170; TIGR04029 880591005432 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 880591005433 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 880591005434 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591005435 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591005436 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005437 Walker A/P-loop; other site 880591005438 ATP binding site [chemical binding]; other site 880591005439 Q-loop/lid; other site 880591005440 ABC transporter signature motif; other site 880591005441 Walker B; other site 880591005442 D-loop; other site 880591005443 H-loop/switch region; other site 880591005444 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591005445 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005446 Walker A/P-loop; other site 880591005447 ATP binding site [chemical binding]; other site 880591005448 Q-loop/lid; other site 880591005449 ABC transporter signature motif; other site 880591005450 Walker B; other site 880591005451 D-loop; other site 880591005452 H-loop/switch region; other site 880591005453 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591005454 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591005455 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 880591005456 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 880591005457 dimer interface [polypeptide binding]; other site 880591005458 conserved gate region; other site 880591005459 putative PBP binding loops; other site 880591005460 ABC-ATPase subunit interface; other site 880591005461 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 880591005462 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591005463 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_15; cd08492 880591005464 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 880591005465 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 880591005466 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 880591005467 Walker A/P-loop; other site 880591005468 ATP binding site [chemical binding]; other site 880591005469 Q-loop/lid; other site 880591005470 ABC transporter signature motif; other site 880591005471 Walker B; other site 880591005472 D-loop; other site 880591005473 H-loop/switch region; other site 880591005474 NIL domain; Region: NIL; pfam09383 880591005475 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 880591005476 putative PBP binding loops; other site 880591005477 dimer interface [polypeptide binding]; other site 880591005478 ABC-ATPase subunit interface; other site 880591005479 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 880591005480 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 880591005481 active site 880591005482 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 880591005483 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 880591005484 active site 880591005485 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 880591005486 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 880591005487 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880591005488 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 880591005489 metal binding site [ion binding]; metal-binding site 880591005490 putative dimer interface [polypeptide binding]; other site 880591005491 hypothetical protein; Validated; Region: PRK09104 880591005492 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 880591005493 metal binding site [ion binding]; metal-binding site 880591005494 putative dimer interface [polypeptide binding]; other site 880591005495 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880591005496 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591005497 Walker A/P-loop; other site 880591005498 ATP binding site [chemical binding]; other site 880591005499 Q-loop/lid; other site 880591005500 ABC transporter signature motif; other site 880591005501 Walker B; other site 880591005502 D-loop; other site 880591005503 H-loop/switch region; other site 880591005504 TOBE domain; Region: TOBE_2; pfam08402 880591005505 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 880591005506 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 880591005507 dimer interface [polypeptide binding]; other site 880591005508 conserved gate region; other site 880591005509 putative PBP binding loops; other site 880591005510 ABC-ATPase subunit interface; other site 880591005511 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 880591005512 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 880591005513 dimer interface [polypeptide binding]; other site 880591005514 conserved gate region; other site 880591005515 putative PBP binding loops; other site 880591005516 ABC-ATPase subunit interface; other site 880591005517 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 880591005518 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880591005519 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 880591005520 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 880591005521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591005522 NAD(P) binding site [chemical binding]; other site 880591005523 active site 880591005524 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 880591005525 Putative zinc-finger; Region: zf-HC2; pfam13490 880591005526 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 880591005527 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880591005528 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591005529 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 880591005530 DNA binding residues [nucleotide binding] 880591005531 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 880591005532 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880591005533 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 880591005534 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 880591005535 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 880591005536 DNA photolyase; Region: DNA_photolyase; pfam00875 880591005537 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 880591005538 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 880591005539 MOFRL family; Region: MOFRL; pfam05161 880591005540 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 880591005541 homotrimer interaction site [polypeptide binding]; other site 880591005542 putative active site [active] 880591005543 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 880591005544 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 880591005545 Protein of unknown function (DUF983); Region: DUF983; cl02211 880591005546 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 880591005547 catalytic residues [active] 880591005548 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 880591005549 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 880591005550 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 880591005551 Class I ribonucleotide reductase; Region: RNR_I; cd01679 880591005552 active site 880591005553 dimer interface [polypeptide binding]; other site 880591005554 catalytic residues [active] 880591005555 effector binding site; other site 880591005556 R2 peptide binding site; other site 880591005557 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 880591005558 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 880591005559 dimer interface [polypeptide binding]; other site 880591005560 putative radical transfer pathway; other site 880591005561 diiron center [ion binding]; other site 880591005562 tyrosyl radical; other site 880591005563 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 880591005564 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 880591005565 hydroxyglutarate oxidase; Provisional; Region: PRK11728 880591005566 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 880591005567 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 880591005568 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 880591005569 lipoyl attachment site [posttranslational modification]; other site 880591005570 glycine dehydrogenase; Provisional; Region: PRK05367 880591005571 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 880591005572 tetramer interface [polypeptide binding]; other site 880591005573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591005574 catalytic residue [active] 880591005575 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 880591005576 tetramer interface [polypeptide binding]; other site 880591005577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591005578 catalytic residue [active] 880591005579 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880591005580 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 880591005581 putative active site [active] 880591005582 putative metal binding site [ion binding]; other site 880591005583 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 880591005584 ligand binding site; other site 880591005585 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 880591005586 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880591005587 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 880591005588 dimerization interface [polypeptide binding]; other site 880591005589 putative DNA binding site [nucleotide binding]; other site 880591005590 putative Zn2+ binding site [ion binding]; other site 880591005591 AsnC family; Region: AsnC_trans_reg; pfam01037 880591005592 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 880591005593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591005594 Walker A/P-loop; other site 880591005595 ATP binding site [chemical binding]; other site 880591005596 Q-loop/lid; other site 880591005597 ABC transporter signature motif; other site 880591005598 Walker B; other site 880591005599 D-loop; other site 880591005600 H-loop/switch region; other site 880591005601 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880591005602 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 880591005603 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 880591005604 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 880591005605 dimer interface [polypeptide binding]; other site 880591005606 conserved gate region; other site 880591005607 putative PBP binding loops; other site 880591005608 ABC-ATPase subunit interface; other site 880591005609 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 880591005610 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 880591005611 dimer interface [polypeptide binding]; other site 880591005612 conserved gate region; other site 880591005613 ABC-ATPase subunit interface; other site 880591005614 potential frameshift: common BLAST hit: gi|99081279|ref|YP_613433.1| MscS mechanosensitive ion channel 880591005615 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880591005616 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 880591005617 Mechanosensitive ion channel; Region: MS_channel; pfam00924 880591005618 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 880591005619 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 880591005620 dimer interface [polypeptide binding]; other site 880591005621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591005622 catalytic residue [active] 880591005623 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 880591005624 dimer interface [polypeptide binding]; other site 880591005625 ADP-ribose binding site [chemical binding]; other site 880591005626 active site 880591005627 nudix motif; other site 880591005628 metal binding site [ion binding]; metal-binding site 880591005629 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 880591005630 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 880591005631 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 880591005632 S-adenosylmethionine binding site [chemical binding]; other site 880591005633 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 880591005634 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880591005635 classical (c) SDRs; Region: SDR_c; cd05233 880591005636 active site 880591005637 Stringent starvation protein B; Region: SspB; pfam04386 880591005638 fumarate hydratase; Reviewed; Region: fumC; PRK00485 880591005639 Class II fumarases; Region: Fumarase_classII; cd01362 880591005640 active site 880591005641 tetramer interface [polypeptide binding]; other site 880591005642 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 880591005643 Cytochrome P450; Region: p450; cl12078 880591005644 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 880591005645 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 880591005646 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 880591005647 putative active site [active] 880591005648 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 880591005649 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 880591005650 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 880591005651 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 880591005652 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 880591005653 active site 880591005654 Predicted esterase [General function prediction only]; Region: COG0400 880591005655 putative hydrolase; Provisional; Region: PRK11460 880591005656 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 880591005657 endonuclease III; Region: ENDO3c; smart00478 880591005658 minor groove reading motif; other site 880591005659 helix-hairpin-helix signature motif; other site 880591005660 substrate binding pocket [chemical binding]; other site 880591005661 active site 880591005662 elongation factor P; Validated; Region: PRK00529 880591005663 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 880591005664 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 880591005665 RNA binding site [nucleotide binding]; other site 880591005666 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 880591005667 RNA binding site [nucleotide binding]; other site 880591005668 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 880591005669 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 880591005670 motif 1; other site 880591005671 dimer interface [polypeptide binding]; other site 880591005672 active site 880591005673 motif 2; other site 880591005674 motif 3; other site 880591005675 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 880591005676 active site 880591005677 multimer interface [polypeptide binding]; other site 880591005678 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 880591005679 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591005680 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591005681 ABC transporter; Region: ABC_tran_2; pfam12848 880591005682 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 880591005683 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 880591005684 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 880591005685 PAS domain S-box; Region: sensory_box; TIGR00229 880591005686 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 880591005687 putative active site [active] 880591005688 heme pocket [chemical binding]; other site 880591005689 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 880591005690 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 880591005691 metal binding site [ion binding]; metal-binding site 880591005692 active site 880591005693 I-site; other site 880591005694 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 880591005695 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 880591005696 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 880591005697 catalytic motif [active] 880591005698 Catalytic residue [active] 880591005699 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591005700 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 880591005701 dimer interface [polypeptide binding]; other site 880591005702 conserved gate region; other site 880591005703 putative PBP binding loops; other site 880591005704 ABC-ATPase subunit interface; other site 880591005705 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591005706 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591005707 Walker A/P-loop; other site 880591005708 ATP binding site [chemical binding]; other site 880591005709 Q-loop/lid; other site 880591005710 ABC transporter signature motif; other site 880591005711 Walker B; other site 880591005712 D-loop; other site 880591005713 H-loop/switch region; other site 880591005714 NMT1/THI5 like; Region: NMT1; pfam09084 880591005715 BtpA family; Region: BtpA; cl00440 880591005716 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 880591005717 classical (c) SDRs; Region: SDR_c; cd05233 880591005718 NAD(P) binding site [chemical binding]; other site 880591005719 active site 880591005720 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 880591005721 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 880591005722 N- and C-terminal domain interface [polypeptide binding]; other site 880591005723 putative active site [active] 880591005724 MgATP binding site [chemical binding]; other site 880591005725 catalytic site [active] 880591005726 metal binding site [ion binding]; metal-binding site 880591005727 putative xylulose binding site [chemical binding]; other site 880591005728 putative homodimer interface [polypeptide binding]; other site 880591005729 cytosine deaminase; Provisional; Region: PRK05985 880591005730 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 880591005731 active site 880591005732 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 880591005733 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 880591005734 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 880591005735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591005736 DNA-binding site [nucleotide binding]; DNA binding site 880591005737 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 880591005738 cytosine deaminase; Provisional; Region: PRK05985 880591005739 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 880591005740 active site 880591005741 Protein of unknown function (DUF4243); Region: DUF4243; pfam14027 880591005742 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 880591005743 Lumazine binding domain; Region: Lum_binding; pfam00677 880591005744 Lumazine binding domain; Region: Lum_binding; pfam00677 880591005745 DNA polymerase III subunit chi; Validated; Region: PRK05728 880591005746 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 880591005747 multifunctional aminopeptidase A; Provisional; Region: PRK00913 880591005748 interface (dimer of trimers) [polypeptide binding]; other site 880591005749 Substrate-binding/catalytic site; other site 880591005750 Zn-binding sites [ion binding]; other site 880591005751 Predicted permeases [General function prediction only]; Region: COG0795 880591005752 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 880591005753 Predicted permeases [General function prediction only]; Region: COG0795 880591005754 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 880591005755 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 880591005756 Organic solvent tolerance protein; Region: OstA_C; pfam04453 880591005757 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 880591005758 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 880591005759 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 880591005760 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 880591005761 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 880591005762 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 880591005763 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 880591005764 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 880591005765 peptide chain release factor 1; Validated; Region: prfA; PRK00591 880591005766 PCRF domain; Region: PCRF; pfam03462 880591005767 RF-1 domain; Region: RF-1; pfam00472 880591005768 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 880591005769 Homoserine O-succinyltransferase; Region: HTS; pfam04204 880591005770 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 880591005771 proposed active site lysine [active] 880591005772 conserved cys residue [active] 880591005773 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591005774 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591005775 WHG domain; Region: WHG; pfam13305 880591005776 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880591005777 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591005778 Walker A/P-loop; other site 880591005779 ATP binding site [chemical binding]; other site 880591005780 Q-loop/lid; other site 880591005781 ABC transporter signature motif; other site 880591005782 Walker B; other site 880591005783 D-loop; other site 880591005784 H-loop/switch region; other site 880591005785 TOBE domain; Region: TOBE_2; pfam08402 880591005786 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 880591005787 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 880591005788 dimer interface [polypeptide binding]; other site 880591005789 conserved gate region; other site 880591005790 putative PBP binding loops; other site 880591005791 ABC-ATPase subunit interface; other site 880591005792 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 880591005793 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 880591005794 dimer interface [polypeptide binding]; other site 880591005795 putative PBP binding loops; other site 880591005796 ABC-ATPase subunit interface; other site 880591005797 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 880591005798 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 880591005799 23S rRNA interface [nucleotide binding]; other site 880591005800 L3 interface [polypeptide binding]; other site 880591005801 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 880591005802 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 880591005803 active site 880591005804 Zn binding site [ion binding]; other site 880591005805 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 880591005806 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 880591005807 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 880591005808 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 880591005809 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 880591005810 thiamine phosphate binding site [chemical binding]; other site 880591005811 active site 880591005812 pyrophosphate binding site [ion binding]; other site 880591005813 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 880591005814 putative coenzyme Q binding site [chemical binding]; other site 880591005815 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880591005816 active site 880591005817 Helix-turn-helix domain; Region: HTH_38; pfam13936 880591005818 GMP synthase; Reviewed; Region: guaA; PRK00074 880591005819 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 880591005820 AMP/PPi binding site [chemical binding]; other site 880591005821 candidate oxyanion hole; other site 880591005822 catalytic triad [active] 880591005823 potential glutamine specificity residues [chemical binding]; other site 880591005824 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 880591005825 ATP Binding subdomain [chemical binding]; other site 880591005826 Ligand Binding sites [chemical binding]; other site 880591005827 Dimerization subdomain; other site 880591005828 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 880591005829 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 880591005830 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 880591005831 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 880591005832 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 880591005833 FMN binding site [chemical binding]; other site 880591005834 active site 880591005835 catalytic residues [active] 880591005836 substrate binding site [chemical binding]; other site 880591005837 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 880591005838 HlyD family secretion protein; Region: HlyD_3; pfam13437 880591005839 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591005840 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_2; cd08498 880591005841 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591005842 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 880591005843 dimer interface [polypeptide binding]; other site 880591005844 conserved gate region; other site 880591005845 putative PBP binding loops; other site 880591005846 ABC-ATPase subunit interface; other site 880591005847 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591005848 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 880591005849 dimer interface [polypeptide binding]; other site 880591005850 conserved gate region; other site 880591005851 putative PBP binding loops; other site 880591005852 ABC-ATPase subunit interface; other site 880591005853 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591005854 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005855 Walker A/P-loop; other site 880591005856 ATP binding site [chemical binding]; other site 880591005857 Q-loop/lid; other site 880591005858 ABC transporter signature motif; other site 880591005859 Walker B; other site 880591005860 D-loop; other site 880591005861 H-loop/switch region; other site 880591005862 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591005863 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591005864 Walker A/P-loop; other site 880591005865 ATP binding site [chemical binding]; other site 880591005866 Q-loop/lid; other site 880591005867 ABC transporter signature motif; other site 880591005868 Walker B; other site 880591005869 D-loop; other site 880591005870 H-loop/switch region; other site 880591005871 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591005872 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 880591005873 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 880591005874 S-adenosylmethionine binding site [chemical binding]; other site 880591005875 exopolyphosphatase; Region: exo_poly_only; TIGR03706 880591005876 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 880591005877 Glucokinase; Region: Glucokinase; pfam02685 880591005878 glucokinase, proteobacterial type; Region: glk; TIGR00749 880591005879 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 880591005880 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 880591005881 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 880591005882 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 880591005883 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 880591005884 active site 880591005885 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 880591005886 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 880591005887 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 880591005888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 880591005889 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 880591005890 Uncharacterized conserved protein [Function unknown]; Region: COG2308 880591005891 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 880591005892 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 880591005893 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 880591005894 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 880591005895 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 880591005896 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 880591005897 FeS/SAM binding site; other site 880591005898 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 880591005899 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 880591005900 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 880591005901 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880591005902 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 880591005903 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880591005904 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 880591005905 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 880591005906 dimer interface [polypeptide binding]; other site 880591005907 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 880591005908 active site 880591005909 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880591005910 catalytic residues [active] 880591005911 substrate binding site [chemical binding]; other site 880591005912 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 880591005913 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 880591005914 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 880591005915 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 880591005916 ligand binding site [chemical binding]; other site 880591005917 homodimer interface [polypeptide binding]; other site 880591005918 NAD(P) binding site [chemical binding]; other site 880591005919 trimer interface B [polypeptide binding]; other site 880591005920 trimer interface A [polypeptide binding]; other site 880591005921 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 880591005922 Peptidase C26; Region: Peptidase_C26; pfam07722 880591005923 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 880591005924 catalytic triad [active] 880591005925 malate synthase G; Provisional; Region: PRK02999 880591005926 active site 880591005927 aminopeptidase N; Provisional; Region: pepN; PRK14015 880591005928 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 880591005929 Zn binding site [ion binding]; other site 880591005930 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 880591005931 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880591005932 catalytic residue [active] 880591005933 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 880591005934 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 880591005935 GatB domain; Region: GatB_Yqey; smart00845 880591005936 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 880591005937 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 880591005938 HSP70 interaction site [polypeptide binding]; other site 880591005939 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 880591005940 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 880591005941 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 880591005942 Predicted flavoprotein [General function prediction only]; Region: COG0431 880591005943 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880591005944 Predicted transcriptional regulators [Transcription]; Region: COG1733 880591005945 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 880591005946 dimerization interface [polypeptide binding]; other site 880591005947 putative DNA binding site [nucleotide binding]; other site 880591005948 putative Zn2+ binding site [ion binding]; other site 880591005949 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 880591005950 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 880591005951 metal ion-dependent adhesion site (MIDAS); other site 880591005952 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 880591005953 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 880591005954 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 880591005955 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 880591005956 active site 880591005957 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 880591005958 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 880591005959 carboxyltransferase (CT) interaction site; other site 880591005960 biotinylation site [posttranslational modification]; other site 880591005961 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 880591005962 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 880591005963 NADH dehydrogenase; Validated; Region: PRK08183 880591005964 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 880591005965 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 880591005966 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 880591005967 Walker A motif; other site 880591005968 ATP binding site [chemical binding]; other site 880591005969 Walker B motif; other site 880591005970 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 880591005971 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 880591005972 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 880591005973 oligomer interface [polypeptide binding]; other site 880591005974 active site residues [active] 880591005975 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 880591005976 phosphoglucomutase; Region: PLN02307 880591005977 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 880591005978 active site 880591005979 substrate binding site [chemical binding]; other site 880591005980 metal binding site [ion binding]; metal-binding site 880591005981 potential frameshift: common BLAST hit: gi|99081972|ref|YP_614126.1| capsule polysaccharide biosynthesis 880591005982 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 880591005983 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 880591005984 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 880591005985 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 880591005986 ATP cone domain; Region: ATP-cone; pfam03477 880591005987 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 880591005988 active site 880591005989 catalytic site [active] 880591005990 substrate binding site [chemical binding]; other site 880591005991 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 880591005992 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 880591005993 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 880591005994 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 880591005995 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591005996 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 880591005997 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 880591005998 DNA binding residues [nucleotide binding] 880591005999 DNA primase; Validated; Region: dnaG; PRK05667 880591006000 CHC2 zinc finger; Region: zf-CHC2; cl17510 880591006001 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 880591006002 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 880591006003 active site 880591006004 metal binding site [ion binding]; metal-binding site 880591006005 interdomain interaction site; other site 880591006006 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 880591006007 Domain of unknown function DUF21; Region: DUF21; pfam01595 880591006008 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 880591006009 Transporter associated domain; Region: CorC_HlyC; smart01091 880591006010 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 880591006011 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 880591006012 active site 880591006013 intersubunit interactions; other site 880591006014 catalytic residue [active] 880591006015 Protein of unknown function, DUF484; Region: DUF484; cl17449 880591006016 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 880591006017 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 880591006018 active site 880591006019 DNA binding site [nucleotide binding] 880591006020 Int/Topo IB signature motif; other site 880591006021 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 880591006022 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591006023 active site 880591006024 HIGH motif; other site 880591006025 nucleotide binding site [chemical binding]; other site 880591006026 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 880591006027 active site 880591006028 KMSKS motif; other site 880591006029 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 880591006030 tRNA binding surface [nucleotide binding]; other site 880591006031 anticodon binding site; other site 880591006032 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 880591006033 hypothetical protein; Provisional; Region: PRK05415 880591006034 Domain of unknown function (DUF697); Region: DUF697; pfam05128 880591006035 YcjX-like family, DUF463; Region: DUF463; pfam04317 880591006036 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 880591006037 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 880591006038 dimerization interface 3.5A [polypeptide binding]; other site 880591006039 active site 880591006040 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 880591006041 Surface antigen; Region: Bac_surface_Ag; pfam01103 880591006042 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 880591006043 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 880591006044 Family of unknown function (DUF490); Region: DUF490; pfam04357 880591006045 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 880591006046 DNA protecting protein DprA; Region: dprA; TIGR00732 880591006047 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 880591006048 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 880591006049 active site 880591006050 interdomain interaction site; other site 880591006051 putative metal-binding site [ion binding]; other site 880591006052 nucleotide binding site [chemical binding]; other site 880591006053 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 880591006054 domain I; other site 880591006055 DNA binding groove [nucleotide binding] 880591006056 phosphate binding site [ion binding]; other site 880591006057 domain II; other site 880591006058 domain III; other site 880591006059 nucleotide binding site [chemical binding]; other site 880591006060 catalytic site [active] 880591006061 domain IV; other site 880591006062 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 880591006063 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 880591006064 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 880591006065 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 880591006066 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 880591006067 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 880591006068 dimer interface [polypeptide binding]; other site 880591006069 putative CheW interface [polypeptide binding]; other site 880591006070 Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheD; COG1871 880591006071 CheB methylesterase; Region: CheB_methylest; pfam01339 880591006072 STAS domain; Region: STAS_2; pfam13466 880591006073 Response regulator receiver domain; Region: Response_reg; pfam00072 880591006074 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 880591006075 active site 880591006076 phosphorylation site [posttranslational modification] 880591006077 intermolecular recognition site; other site 880591006078 dimerization interface [polypeptide binding]; other site 880591006079 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 880591006080 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 880591006081 putative binding surface; other site 880591006082 active site 880591006083 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 880591006084 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 880591006085 ATP binding site [chemical binding]; other site 880591006086 Mg2+ binding site [ion binding]; other site 880591006087 G-X-G motif; other site 880591006088 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 880591006089 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 880591006090 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 880591006091 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 880591006092 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 880591006093 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 880591006094 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 880591006095 active site 880591006096 phosphorylation site [posttranslational modification] 880591006097 intermolecular recognition site; other site 880591006098 dimerization interface [polypeptide binding]; other site 880591006099 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 880591006100 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 880591006101 glutaminase active site [active] 880591006102 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 880591006103 dimer interface [polypeptide binding]; other site 880591006104 active site 880591006105 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 880591006106 dimer interface [polypeptide binding]; other site 880591006107 active site 880591006108 peptidase T; Region: peptidase-T; TIGR01882 880591006109 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 880591006110 metal binding site [ion binding]; metal-binding site 880591006111 dimer interface [polypeptide binding]; other site 880591006112 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 880591006113 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 880591006114 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591006115 homodimer interface [polypeptide binding]; other site 880591006116 catalytic residue [active] 880591006117 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 880591006118 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591006119 Walker A/P-loop; other site 880591006120 ATP binding site [chemical binding]; other site 880591006121 Q-loop/lid; other site 880591006122 ABC transporter signature motif; other site 880591006123 Walker B; other site 880591006124 D-loop; other site 880591006125 H-loop/switch region; other site 880591006126 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591006127 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880591006128 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591006129 Walker A/P-loop; other site 880591006130 ATP binding site [chemical binding]; other site 880591006131 Q-loop/lid; other site 880591006132 ABC transporter signature motif; other site 880591006133 Walker B; other site 880591006134 D-loop; other site 880591006135 H-loop/switch region; other site 880591006136 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591006137 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591006138 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 880591006139 dimer interface [polypeptide binding]; other site 880591006140 conserved gate region; other site 880591006141 putative PBP binding loops; other site 880591006142 ABC-ATPase subunit interface; other site 880591006143 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591006144 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 880591006145 dimer interface [polypeptide binding]; other site 880591006146 conserved gate region; other site 880591006147 putative PBP binding loops; other site 880591006148 ABC-ATPase subunit interface; other site 880591006149 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 880591006150 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591006151 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591006152 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591006153 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 880591006154 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 880591006155 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 880591006156 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_13; cd08517 880591006157 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591006158 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 880591006159 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 880591006160 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 880591006161 active site 880591006162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591006163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591006164 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 880591006165 putative effector binding pocket; other site 880591006166 dimerization interface [polypeptide binding]; other site 880591006167 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 880591006168 Domain of unknown function DUF108; Region: DUF108; pfam01958 880591006169 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 880591006170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591006171 NAD(P) binding site [chemical binding]; other site 880591006172 active site 880591006173 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 880591006174 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 880591006175 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 880591006176 DctM-like transporters; Region: DctM; pfam06808 880591006177 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 880591006178 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 880591006179 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 880591006180 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 880591006181 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 880591006182 NIPSNAP; Region: NIPSNAP; pfam07978 880591006183 Cupin domain; Region: Cupin_2; pfam07883 880591006184 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 880591006185 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591006186 DNA-binding site [nucleotide binding]; DNA binding site 880591006187 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 880591006188 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 880591006189 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 880591006190 tetramer interface [polypeptide binding]; other site 880591006191 active site 880591006192 Mg2+/Mn2+ binding site [ion binding]; other site 880591006193 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591006194 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591006195 DNA-binding site [nucleotide binding]; DNA binding site 880591006196 FCD domain; Region: FCD; pfam07729 880591006197 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 880591006198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 880591006199 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 880591006200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 880591006201 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591006202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591006203 DNA-binding site [nucleotide binding]; DNA binding site 880591006204 FCD domain; Region: FCD; pfam07729 880591006205 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 880591006206 NMT1/THI5 like; Region: NMT1; pfam09084 880591006207 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591006208 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591006209 Walker A/P-loop; other site 880591006210 ATP binding site [chemical binding]; other site 880591006211 Q-loop/lid; other site 880591006212 ABC transporter signature motif; other site 880591006213 Walker B; other site 880591006214 D-loop; other site 880591006215 H-loop/switch region; other site 880591006216 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591006217 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 880591006218 dimer interface [polypeptide binding]; other site 880591006219 conserved gate region; other site 880591006220 putative PBP binding loops; other site 880591006221 ABC-ATPase subunit interface; other site 880591006222 pyrimidine utilization protein A; Region: RutA; TIGR03612 880591006223 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 880591006224 active site 880591006225 dimer interface [polypeptide binding]; other site 880591006226 non-prolyl cis peptide bond; other site 880591006227 insertion regions; other site 880591006228 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591006229 putative substrate translocation pore; other site 880591006230 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 880591006231 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 880591006232 active site 880591006233 homodimer interface [polypeptide binding]; other site 880591006234 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 880591006235 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 880591006236 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 880591006237 Phosphate transporter family; Region: PHO4; pfam01384 880591006238 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_9; cd04666 880591006239 nudix motif; other site 880591006240 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 880591006241 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 880591006242 active site 880591006243 phosphorylation site [posttranslational modification] 880591006244 intermolecular recognition site; other site 880591006245 dimerization interface [polypeptide binding]; other site 880591006246 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 880591006247 Walker A motif; other site 880591006248 ATP binding site [chemical binding]; other site 880591006249 Walker B motif; other site 880591006250 arginine finger; other site 880591006251 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 880591006252 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 880591006253 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 880591006254 dimer interface [polypeptide binding]; other site 880591006255 phosphorylation site [posttranslational modification] 880591006256 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 880591006257 ATP binding site [chemical binding]; other site 880591006258 Mg2+ binding site [ion binding]; other site 880591006259 G-X-G motif; other site 880591006260 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 880591006261 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 880591006262 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 880591006263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591006264 Walker A/P-loop; other site 880591006265 ATP binding site [chemical binding]; other site 880591006266 Q-loop/lid; other site 880591006267 ABC transporter signature motif; other site 880591006268 Walker B; other site 880591006269 H-loop/switch region; other site 880591006270 ABC-2 type transporter; Region: ABC2_membrane; cl17235 880591006271 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 880591006272 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 880591006273 classical (c) SDRs; Region: SDR_c; cd05233 880591006274 NAD(P) binding site [chemical binding]; other site 880591006275 active site 880591006276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591006277 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 880591006278 potential frameshift: common BLAST hit: gi|222082351|ref|YP_002541716.1| vicibactin biosynthesis non-ribosomal peptide synthase protein 880591006279 Condensation domain; Region: Condensation; pfam00668 880591006280 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 880591006281 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 880591006282 acyl-activating enzyme (AAE) consensus motif; other site 880591006283 active site 880591006284 AMP binding site [chemical binding]; other site 880591006285 CoA binding site [chemical binding]; other site 880591006286 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 880591006287 CoA binding site [chemical binding]; other site 880591006288 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 880591006289 Thioesterase domain; Region: Thioesterase; pfam00975 880591006290 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 880591006291 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 880591006292 active site 880591006293 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 880591006294 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880591006295 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 880591006296 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 880591006297 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880591006298 KpsF/GutQ family protein; Region: kpsF; TIGR00393 880591006299 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 880591006300 putative active site [active] 880591006301 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 880591006302 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 880591006303 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 880591006304 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 880591006305 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591006306 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 880591006307 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591006308 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591006309 Walker A/P-loop; other site 880591006310 ATP binding site [chemical binding]; other site 880591006311 Q-loop/lid; other site 880591006312 ABC transporter signature motif; other site 880591006313 Walker B; other site 880591006314 D-loop; other site 880591006315 H-loop/switch region; other site 880591006316 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591006317 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 880591006318 dimer interface [polypeptide binding]; other site 880591006319 conserved gate region; other site 880591006320 putative PBP binding loops; other site 880591006321 ABC-ATPase subunit interface; other site 880591006322 NMT1/THI5 like; Region: NMT1; pfam09084 880591006323 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 880591006324 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 880591006325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591006326 DNA-binding site [nucleotide binding]; DNA binding site 880591006327 FCD domain; Region: FCD; pfam07729 880591006328 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 880591006329 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 880591006330 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 880591006331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591006332 Walker A/P-loop; other site 880591006333 ATP binding site [chemical binding]; other site 880591006334 Q-loop/lid; other site 880591006335 ABC transporter signature motif; other site 880591006336 Walker B; other site 880591006337 D-loop; other site 880591006338 H-loop/switch region; other site 880591006339 TOBE domain; Region: TOBE_2; pfam08402 880591006340 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 880591006341 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 880591006342 active site 880591006343 catalytic site [active] 880591006344 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 880591006345 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591006346 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 880591006347 putative PBP binding loops; other site 880591006348 dimer interface [polypeptide binding]; other site 880591006349 ABC-ATPase subunit interface; other site 880591006350 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 880591006351 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 880591006352 dimer interface [polypeptide binding]; other site 880591006353 conserved gate region; other site 880591006354 putative PBP binding loops; other site 880591006355 ABC-ATPase subunit interface; other site 880591006356 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 880591006357 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591006358 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591006359 DNA binding site [nucleotide binding] 880591006360 domain linker motif; other site 880591006361 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 880591006362 ligand binding site [chemical binding]; other site 880591006363 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 880591006364 beta-galactosidase; Region: BGL; TIGR03356 880591006365 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 880591006366 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 880591006367 aspartate racemase; Region: asp_race; TIGR00035 880591006368 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 880591006369 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 880591006370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880591006371 PRC-barrel domain; Region: PRC; pfam05239 880591006372 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880591006373 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 880591006374 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880591006375 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 880591006376 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 880591006377 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 880591006378 Sulfate transporter family; Region: Sulfate_transp; pfam00916 880591006379 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 880591006380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591006381 NAD(P) binding site [chemical binding]; other site 880591006382 active site 880591006383 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 880591006384 putative active site [active] 880591006385 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 880591006386 lipoyl-biotinyl attachment site [posttranslational modification]; other site 880591006387 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 880591006388 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 880591006389 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 880591006390 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 880591006391 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880591006392 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 880591006393 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 880591006394 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 880591006395 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 880591006396 carboxyltransferase (CT) interaction site; other site 880591006397 biotinylation site [posttranslational modification]; other site 880591006398 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 880591006399 aspartate aminotransferase; Provisional; Region: PRK06107 880591006400 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 880591006401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591006402 homodimer interface [polypeptide binding]; other site 880591006403 catalytic residue [active] 880591006404 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591006405 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591006406 DNA binding site [nucleotide binding] 880591006407 domain linker motif; other site 880591006408 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 880591006409 putative dimerization interface [polypeptide binding]; other site 880591006410 putative ligand binding site [chemical binding]; other site 880591006411 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 880591006412 AAA domain; Region: AAA_33; pfam13671 880591006413 ATP-binding site [chemical binding]; other site 880591006414 Gluconate-6-phosphate binding site [chemical binding]; other site 880591006415 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 880591006416 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 880591006417 NADP binding site [chemical binding]; other site 880591006418 homodimer interface [polypeptide binding]; other site 880591006419 active site 880591006420 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 880591006421 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 880591006422 putative ligand binding site [chemical binding]; other site 880591006423 NAD binding site [chemical binding]; other site 880591006424 catalytic site [active] 880591006425 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 880591006426 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 880591006427 putative NAD(P) binding site [chemical binding]; other site 880591006428 catalytic Zn binding site [ion binding]; other site 880591006429 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 880591006430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591006431 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 880591006432 putative dimerization interface [polypeptide binding]; other site 880591006433 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880591006434 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880591006435 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591006436 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 880591006437 dimer interface [polypeptide binding]; other site 880591006438 conserved gate region; other site 880591006439 putative PBP binding loops; other site 880591006440 ABC-ATPase subunit interface; other site 880591006441 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 880591006442 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 880591006443 putative PBP binding loops; other site 880591006444 ABC-ATPase subunit interface; other site 880591006445 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 880591006446 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 880591006447 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 880591006448 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 880591006449 Walker A/P-loop; other site 880591006450 ATP binding site [chemical binding]; other site 880591006451 Q-loop/lid; other site 880591006452 ABC transporter signature motif; other site 880591006453 Walker B; other site 880591006454 D-loop; other site 880591006455 H-loop/switch region; other site 880591006456 TOBE domain; Region: TOBE_2; pfam08402 880591006457 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 880591006458 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 880591006459 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 880591006460 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591006461 Walker A/P-loop; other site 880591006462 ATP binding site [chemical binding]; other site 880591006463 Q-loop/lid; other site 880591006464 ABC transporter signature motif; other site 880591006465 Walker B; other site 880591006466 D-loop; other site 880591006467 H-loop/switch region; other site 880591006468 TOBE domain; Region: TOBE_2; pfam08402 880591006469 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 880591006470 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 880591006471 dimer interface [polypeptide binding]; other site 880591006472 conserved gate region; other site 880591006473 putative PBP binding loops; other site 880591006474 ABC-ATPase subunit interface; other site 880591006475 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 880591006476 dimer interface [polypeptide binding]; other site 880591006477 conserved gate region; other site 880591006478 putative PBP binding loops; other site 880591006479 ABC-ATPase subunit interface; other site 880591006480 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 880591006481 hypothetical protein; Validated; Region: PRK06201 880591006482 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591006483 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591006484 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 880591006485 dimerization interface [polypeptide binding]; other site 880591006486 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 880591006487 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591006488 Trp docking motif [polypeptide binding]; other site 880591006489 active site 880591006490 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 880591006491 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 880591006492 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 880591006493 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 880591006494 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 880591006495 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 880591006496 CRISPR-associated protein Cas4; Region: cas4; TIGR00372 880591006497 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 880591006498 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 880591006499 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 880591006500 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 880591006501 NAD(P) binding site [chemical binding]; other site 880591006502 catalytic residues [active] 880591006503 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 880591006504 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 880591006505 Walker A/P-loop; other site 880591006506 ATP binding site [chemical binding]; other site 880591006507 Q-loop/lid; other site 880591006508 ABC transporter signature motif; other site 880591006509 Walker B; other site 880591006510 D-loop; other site 880591006511 H-loop/switch region; other site 880591006512 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 880591006513 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 880591006514 Walker A/P-loop; other site 880591006515 ATP binding site [chemical binding]; other site 880591006516 Q-loop/lid; other site 880591006517 ABC transporter signature motif; other site 880591006518 Walker B; other site 880591006519 D-loop; other site 880591006520 H-loop/switch region; other site 880591006521 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 880591006522 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 880591006523 TM-ABC transporter signature motif; other site 880591006524 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591006525 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 880591006526 TM-ABC transporter signature motif; other site 880591006527 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 880591006528 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 880591006529 putative ligand binding site [chemical binding]; other site 880591006530 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 880591006531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880591006532 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 880591006533 conserved cys residue [active] 880591006534 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 880591006535 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880591006536 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 880591006537 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 880591006538 putative active site [active] 880591006539 putative catalytic site [active] 880591006540 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 880591006541 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 880591006542 putative active site [active] 880591006543 putative catalytic site [active] 880591006544 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591006545 putative transporter; Provisional; Region: PRK10504 880591006546 putative substrate translocation pore; other site 880591006547 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 880591006548 Amidase; Region: Amidase; pfam01425 880591006549 potential frameshift: common BLAST hit: gi|91778046|ref|YP_553254.1| ABC sugar transporter periplasmic ligand binding protein 880591006550 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 880591006551 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 880591006552 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 880591006553 dimer interface [polypeptide binding]; other site 880591006554 conserved gate region; other site 880591006555 putative PBP binding loops; other site 880591006556 ABC-ATPase subunit interface; other site 880591006557 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591006558 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 880591006559 dimer interface [polypeptide binding]; other site 880591006560 conserved gate region; other site 880591006561 putative PBP binding loops; other site 880591006562 ABC-ATPase subunit interface; other site 880591006563 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 880591006564 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 880591006565 Walker A/P-loop; other site 880591006566 ATP binding site [chemical binding]; other site 880591006567 Q-loop/lid; other site 880591006568 ABC transporter signature motif; other site 880591006569 Walker B; other site 880591006570 D-loop; other site 880591006571 H-loop/switch region; other site 880591006572 TOBE domain; Region: TOBE_2; pfam08402 880591006573 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 880591006574 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880591006575 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880591006576 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880591006577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591006578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591006579 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 880591006580 Isochorismatase family; Region: Isochorismatase; pfam00857 880591006581 catalytic triad [active] 880591006582 conserved cis-peptide bond; other site 880591006583 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591006584 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591006585 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 880591006586 dimerization interface [polypeptide binding]; other site 880591006587 Transposase; Region: HTH_Tnp_1; cl17663 880591006588 putative transposase OrfB; Reviewed; Region: PHA02517 880591006589 HTH-like domain; Region: HTH_21; pfam13276 880591006590 Integrase core domain; Region: rve; pfam00665 880591006591 Integrase core domain; Region: rve_3; pfam13683 880591006592 LrgB-like family; Region: LrgB; cl00596 880591006593 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 880591006594 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591006595 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591006596 WHG domain; Region: WHG; pfam13305 880591006597 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 880591006598 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 880591006599 NAD(P) binding site [chemical binding]; other site 880591006600 catalytic residues [active] 880591006601 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591006602 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591006603 Walker A/P-loop; other site 880591006604 ATP binding site [chemical binding]; other site 880591006605 Q-loop/lid; other site 880591006606 ABC transporter signature motif; other site 880591006607 Walker B; other site 880591006608 D-loop; other site 880591006609 H-loop/switch region; other site 880591006610 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591006611 Walker A/P-loop; other site 880591006612 ATP binding site [chemical binding]; other site 880591006613 Q-loop/lid; other site 880591006614 ABC transporter signature motif; other site 880591006615 Walker B; other site 880591006616 D-loop; other site 880591006617 H-loop/switch region; other site 880591006618 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 880591006619 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 880591006620 active site 880591006621 metal binding site [ion binding]; metal-binding site 880591006622 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591006623 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 880591006624 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 880591006625 dimer interface [polypeptide binding]; other site 880591006626 conserved gate region; other site 880591006627 ABC-ATPase subunit interface; other site 880591006628 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591006629 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 880591006630 dimer interface [polypeptide binding]; other site 880591006631 conserved gate region; other site 880591006632 putative PBP binding loops; other site 880591006633 ABC-ATPase subunit interface; other site 880591006634 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591006635 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591006636 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 880591006637 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 880591006638 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 880591006639 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 880591006640 active site 880591006641 DNA binding site [nucleotide binding] 880591006642 Predicted membrane protein [Function unknown]; Region: COG2323 880591006643 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 880591006644 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 880591006645 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 880591006646 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 880591006647 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 880591006648 catalytic site [active] 880591006649 active site 880591006650 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 880591006651 glycogen branching enzyme; Provisional; Region: PRK05402 880591006652 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 880591006653 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 880591006654 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 880591006655 active site 880591006656 catalytic site [active] 880591006657 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 880591006658 glycogen synthase; Provisional; Region: glgA; PRK00654 880591006659 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 880591006660 ADP-binding pocket [chemical binding]; other site 880591006661 homodimer interface [polypeptide binding]; other site 880591006662 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 880591006663 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 880591006664 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 880591006665 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 880591006666 active site 880591006667 catalytic site [active] 880591006668 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 880591006669 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 880591006670 ligand binding site; other site 880591006671 oligomer interface; other site 880591006672 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 880591006673 sulfate 1 binding site; other site 880591006674 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 880591006675 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 880591006676 oxidoreductase; Provisional; Region: PRK06128 880591006677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591006678 NAD(P) binding site [chemical binding]; other site 880591006679 active site 880591006680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591006681 NAD(P) binding site [chemical binding]; other site 880591006682 active site 880591006683 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 880591006684 Transcriptional regulator [Transcription]; Region: IclR; COG1414 880591006685 Bacterial transcriptional regulator; Region: IclR; pfam01614 880591006686 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880591006687 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591006688 Walker A/P-loop; other site 880591006689 ATP binding site [chemical binding]; other site 880591006690 Q-loop/lid; other site 880591006691 ABC transporter signature motif; other site 880591006692 Walker B; other site 880591006693 D-loop; other site 880591006694 H-loop/switch region; other site 880591006695 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 880591006696 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 880591006697 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591006698 Walker A/P-loop; other site 880591006699 ATP binding site [chemical binding]; other site 880591006700 Q-loop/lid; other site 880591006701 ABC transporter signature motif; other site 880591006702 Walker B; other site 880591006703 D-loop; other site 880591006704 H-loop/switch region; other site 880591006705 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591006706 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_5; cd08511 880591006707 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591006708 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591006709 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 880591006710 dimer interface [polypeptide binding]; other site 880591006711 conserved gate region; other site 880591006712 putative PBP binding loops; other site 880591006713 ABC-ATPase subunit interface; other site 880591006714 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591006715 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 880591006716 dimer interface [polypeptide binding]; other site 880591006717 conserved gate region; other site 880591006718 putative PBP binding loops; other site 880591006719 ABC-ATPase subunit interface; other site 880591006720 hypothetical protein; Provisional; Region: PRK08204 880591006721 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 880591006722 active site 880591006723 Domain of unknown function (DUF927); Region: DUF927; cl12098 880591006724 Domain of unknown function (DUF927); Region: DUF927; cl12098 880591006725 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880591006726 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 880591006727 non-specific DNA binding site [nucleotide binding]; other site 880591006728 salt bridge; other site 880591006729 sequence-specific DNA binding site [nucleotide binding]; other site 880591006730 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 880591006731 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 880591006732 Walker A motif; other site 880591006733 ATP binding site [chemical binding]; other site 880591006734 Walker B motif; other site 880591006735 arginine finger; other site 880591006736 Peptidase family M41; Region: Peptidase_M41; pfam01434 880591006737 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 880591006738 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 880591006739 catalytic residues [active] 880591006740 catalytic nucleophile [active] 880591006741 Recombinase; Region: Recombinase; pfam07508 880591006742 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 880591006743 maltose O-acetyltransferase; Provisional; Region: PRK10092 880591006744 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 880591006745 active site 880591006746 substrate binding site [chemical binding]; other site 880591006747 trimer interface [polypeptide binding]; other site 880591006748 CoA binding site [chemical binding]; other site 880591006749 Putative phage tail protein; Region: Phage-tail_3; pfam13550 880591006750 Phage-related minor tail protein [Function unknown]; Region: COG5281 880591006751 tape measure domain; Region: tape_meas_nterm; TIGR02675 880591006752 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 880591006753 Phage major tail protein 2; Region: Phage_tail_2; cl11463 880591006754 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 880591006755 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 880591006756 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 880591006757 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 880591006758 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 880591006759 oligomerization interface [polypeptide binding]; other site 880591006760 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 880591006761 Phage capsid family; Region: Phage_capsid; pfam05065 880591006762 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 880591006763 Phage-related protein [Function unknown]; Region: COG4695; cl01923 880591006764 Phage portal protein; Region: Phage_portal; pfam04860 880591006765 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 880591006766 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 880591006767 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 880591006768 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 880591006769 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 880591006770 MT-A70; Region: MT-A70; cl01947 880591006771 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 880591006772 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 880591006773 DNA polymerase III subunit beta; Validated; Region: PRK05643 880591006774 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; cl17512 880591006775 putative DNA binding surface [nucleotide binding]; other site 880591006776 dimer interface [polypeptide binding]; other site 880591006777 beta-clamp/clamp loader binding surface; other site 880591006778 beta-clamp/translesion DNA polymerase binding surface; other site 880591006779 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 880591006780 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 880591006781 dimer interface [polypeptide binding]; other site 880591006782 ssDNA binding site [nucleotide binding]; other site 880591006783 tetramer (dimer of dimers) interface [polypeptide binding]; other site 880591006784 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 880591006785 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 880591006786 active site 880591006787 DNA binding site [nucleotide binding] 880591006788 Int/Topo IB signature motif; other site 880591006789 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 880591006790 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 880591006791 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 880591006792 NAD binding site [chemical binding]; other site 880591006793 dimerization interface [polypeptide binding]; other site 880591006794 product binding site; other site 880591006795 substrate binding site [chemical binding]; other site 880591006796 zinc binding site [ion binding]; other site 880591006797 catalytic residues [active] 880591006798 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 880591006799 Low molecular weight phosphatase family; Region: LMWPc; cl00105 880591006800 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 880591006801 active site 880591006802 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 880591006803 rRNA binding site [nucleotide binding]; other site 880591006804 predicted 30S ribosome binding site; other site 880591006805 Maf-like protein; Region: Maf; pfam02545 880591006806 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 880591006807 active site 880591006808 dimer interface [polypeptide binding]; other site 880591006809 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 880591006810 Domain of unknown function (DUF329); Region: DUF329; cl01144 880591006811 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 880591006812 AMP binding site [chemical binding]; other site 880591006813 CoA binding site [chemical binding]; other site 880591006814 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 880591006815 acyl-activating enzyme (AAE) consensus motif; other site 880591006816 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 880591006817 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880591006818 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591006819 Walker A/P-loop; other site 880591006820 ATP binding site [chemical binding]; other site 880591006821 Q-loop/lid; other site 880591006822 ABC transporter signature motif; other site 880591006823 Walker B; other site 880591006824 D-loop; other site 880591006825 H-loop/switch region; other site 880591006826 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 880591006827 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 880591006828 dimer interface [polypeptide binding]; other site 880591006829 motif 1; other site 880591006830 active site 880591006831 motif 2; other site 880591006832 motif 3; other site 880591006833 Transglycosylase; Region: Transgly; cl17702 880591006834 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 880591006835 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 880591006836 C-terminal domain interface [polypeptide binding]; other site 880591006837 GSH binding site (G-site) [chemical binding]; other site 880591006838 dimer interface [polypeptide binding]; other site 880591006839 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 880591006840 N-terminal domain interface [polypeptide binding]; other site 880591006841 dimer interface [polypeptide binding]; other site 880591006842 substrate binding pocket (H-site) [chemical binding]; other site 880591006843 epoxyqueuosine reductase; Region: TIGR00276 880591006844 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 880591006845 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 880591006846 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 880591006847 dimer interface [polypeptide binding]; other site 880591006848 active site 880591006849 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880591006850 catalytic residues [active] 880591006851 substrate binding site [chemical binding]; other site 880591006852 aromatic amino acid exporter; Provisional; Region: PRK11689 880591006853 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 880591006854 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 880591006855 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 880591006856 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 880591006857 homotrimer interaction site [polypeptide binding]; other site 880591006858 putative active site [active] 880591006859 Creatinine amidohydrolase; Region: Creatininase; pfam02633 880591006860 cytosine deaminase-like protein; Validated; Region: PRK07583 880591006861 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 880591006862 active site 880591006863 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 880591006864 FAD binding domain; Region: FAD_binding_4; pfam01565 880591006865 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 880591006866 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880591006867 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591006868 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591006869 Walker A/P-loop; other site 880591006870 ATP binding site [chemical binding]; other site 880591006871 Q-loop/lid; other site 880591006872 ABC transporter signature motif; other site 880591006873 Walker B; other site 880591006874 D-loop; other site 880591006875 H-loop/switch region; other site 880591006876 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591006877 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 880591006878 dimer interface [polypeptide binding]; other site 880591006879 conserved gate region; other site 880591006880 putative PBP binding loops; other site 880591006881 ABC-ATPase subunit interface; other site 880591006882 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 880591006883 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 880591006884 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 880591006885 homodimer interface [polypeptide binding]; other site 880591006886 NADP binding site [chemical binding]; other site 880591006887 substrate binding site [chemical binding]; other site 880591006888 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 880591006889 Bacterial transcriptional regulator; Region: IclR; pfam01614 880591006890 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 880591006891 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 880591006892 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 880591006893 homodimer interface [polypeptide binding]; other site 880591006894 NADP binding site [chemical binding]; other site 880591006895 substrate binding site [chemical binding]; other site 880591006896 SnoaL-like domain; Region: SnoaL_2; pfam12680 880591006897 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 880591006898 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 880591006899 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 880591006900 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880591006901 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 880591006902 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 880591006903 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 880591006904 dimer interface [polypeptide binding]; other site 880591006905 conserved gate region; other site 880591006906 putative PBP binding loops; other site 880591006907 ABC-ATPase subunit interface; other site 880591006908 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591006909 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 880591006910 dimer interface [polypeptide binding]; other site 880591006911 conserved gate region; other site 880591006912 putative PBP binding loops; other site 880591006913 ABC-ATPase subunit interface; other site 880591006914 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 880591006915 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 880591006916 active sites [active] 880591006917 tetramer interface [polypeptide binding]; other site 880591006918 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 880591006919 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 880591006920 Walker A/P-loop; other site 880591006921 ATP binding site [chemical binding]; other site 880591006922 Q-loop/lid; other site 880591006923 ABC transporter signature motif; other site 880591006924 Walker B; other site 880591006925 D-loop; other site 880591006926 H-loop/switch region; other site 880591006927 TOBE domain; Region: TOBE_2; pfam08402 880591006928 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880591006929 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 880591006930 substrate binding site [chemical binding]; other site 880591006931 ATP binding site [chemical binding]; other site 880591006932 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 880591006933 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 880591006934 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 880591006935 TrkA-N domain; Region: TrkA_N; pfam02254 880591006936 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 880591006937 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 880591006938 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 880591006939 active site 880591006940 HIGH motif; other site 880591006941 dimer interface [polypeptide binding]; other site 880591006942 KMSKS motif; other site 880591006943 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 880591006944 RNA binding surface [nucleotide binding]; other site 880591006945 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 880591006946 metal binding site 2 [ion binding]; metal-binding site 880591006947 putative DNA binding helix; other site 880591006948 metal binding site 1 [ion binding]; metal-binding site 880591006949 dimer interface [polypeptide binding]; other site 880591006950 structural Zn2+ binding site [ion binding]; other site 880591006951 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 880591006952 EamA-like transporter family; Region: EamA; pfam00892 880591006953 enolase; Provisional; Region: eno; PRK00077 880591006954 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 880591006955 dimer interface [polypeptide binding]; other site 880591006956 metal binding site [ion binding]; metal-binding site 880591006957 substrate binding pocket [chemical binding]; other site 880591006958 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 880591006959 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 880591006960 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 880591006961 HIGH motif; other site 880591006962 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 880591006963 active site 880591006964 KMSKS motif; other site 880591006965 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 880591006966 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 880591006967 dimer interface [polypeptide binding]; other site 880591006968 active site 880591006969 citrylCoA binding site [chemical binding]; other site 880591006970 NADH binding [chemical binding]; other site 880591006971 cationic pore residues; other site 880591006972 oxalacetate/citrate binding site [chemical binding]; other site 880591006973 coenzyme A binding site [chemical binding]; other site 880591006974 catalytic triad [active] 880591006975 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 880591006976 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 880591006977 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 880591006978 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 880591006979 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 880591006980 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 880591006981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591006982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591006983 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 880591006984 dimerization interface [polypeptide binding]; other site 880591006985 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 880591006986 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 880591006987 dimerization interface [polypeptide binding]; other site 880591006988 ATP binding site [chemical binding]; other site 880591006989 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 880591006990 dimerization interface [polypeptide binding]; other site 880591006991 ATP binding site [chemical binding]; other site 880591006992 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 880591006993 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 880591006994 putative GSH binding site [chemical binding]; other site 880591006995 catalytic residues [active] 880591006996 Cell division protein ZapA; Region: ZapA; pfam05164 880591006997 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 880591006998 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 880591006999 TPP-binding site [chemical binding]; other site 880591007000 dimer interface [polypeptide binding]; other site 880591007001 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 880591007002 PYR/PP interface [polypeptide binding]; other site 880591007003 dimer interface [polypeptide binding]; other site 880591007004 TPP binding site [chemical binding]; other site 880591007005 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 880591007006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 880591007007 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 880591007008 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 880591007009 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 880591007010 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 880591007011 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 880591007012 active site 880591007013 (T/H)XGH motif; other site 880591007014 Hint domain; Region: Hint_2; pfam13403 880591007015 FAD binding domain; Region: FAD_binding_3; pfam01494 880591007016 hypothetical protein; Provisional; Region: PRK07236 880591007017 transcription antitermination factor NusB; Region: nusB; TIGR01951 880591007018 putative RNA binding site [nucleotide binding]; other site 880591007019 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 880591007020 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 880591007021 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 880591007022 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 880591007023 nucleoside/Zn binding site; other site 880591007024 dimer interface [polypeptide binding]; other site 880591007025 catalytic motif [active] 880591007026 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 880591007027 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 880591007028 RNA binding surface [nucleotide binding]; other site 880591007029 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 880591007030 active site 880591007031 Invertebrate innate immunity transcript family; Region: Innate_immun; pfam12782 880591007032 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 880591007033 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 880591007034 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 880591007035 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 880591007036 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 880591007037 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 880591007038 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880591007039 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 880591007040 putative substrate binding site [chemical binding]; other site 880591007041 putative ATP binding site [chemical binding]; other site 880591007042 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 880591007043 putative active site [active] 880591007044 dimerization interface [polypeptide binding]; other site 880591007045 putative tRNAtyr binding site [nucleotide binding]; other site 880591007046 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 880591007047 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 880591007048 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 880591007049 homodimer interface [polypeptide binding]; other site 880591007050 NADP binding site [chemical binding]; other site 880591007051 substrate binding site [chemical binding]; other site 880591007052 FtsH Extracellular; Region: FtsH_ext; pfam06480 880591007053 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 880591007054 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 880591007055 Walker A motif; other site 880591007056 ATP binding site [chemical binding]; other site 880591007057 Walker B motif; other site 880591007058 arginine finger; other site 880591007059 Peptidase family M41; Region: Peptidase_M41; pfam01434 880591007060 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 880591007061 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 880591007062 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 880591007063 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 880591007064 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880591007065 ligand binding site [chemical binding]; other site 880591007066 translocation protein TolB; Provisional; Region: tolB; PRK05137 880591007067 TolB amino-terminal domain; Region: TolB_N; pfam04052 880591007068 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880591007069 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880591007070 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 880591007071 TolR protein; Region: tolR; TIGR02801 880591007072 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 880591007073 TolQ protein; Region: tolQ; TIGR02796 880591007074 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 880591007075 active site 880591007076 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 880591007077 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 880591007078 Walker A motif; other site 880591007079 ATP binding site [chemical binding]; other site 880591007080 Walker B motif; other site 880591007081 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 880591007082 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 880591007083 RuvA N terminal domain; Region: RuvA_N; pfam01330 880591007084 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 880591007085 active site 880591007086 putative DNA-binding cleft [nucleotide binding]; other site 880591007087 dimer interface [polypeptide binding]; other site 880591007088 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 880591007089 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 880591007090 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 880591007091 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 880591007092 motif 1; other site 880591007093 dimer interface [polypeptide binding]; other site 880591007094 active site 880591007095 motif 2; other site 880591007096 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 880591007097 histidyl-tRNA synthetase; Region: hisS; TIGR00442 880591007098 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 880591007099 dimer interface [polypeptide binding]; other site 880591007100 motif 1; other site 880591007101 motif 2; other site 880591007102 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 880591007103 active site 880591007104 motif 3; other site 880591007105 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 880591007106 anticodon binding site; other site 880591007107 SlyX; Region: SlyX; pfam04102 880591007108 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 880591007109 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 880591007110 putative active site [active] 880591007111 putative PHP Thumb interface [polypeptide binding]; other site 880591007112 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 880591007113 generic binding surface II; other site 880591007114 generic binding surface I; other site 880591007115 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 880591007116 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 880591007117 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 880591007118 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880591007119 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 880591007120 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 880591007121 Predicted membrane protein [Function unknown]; Region: COG3650 880591007122 META domain; Region: META; pfam03724 880591007123 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 880591007124 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 880591007125 active site 880591007126 metal binding site [ion binding]; metal-binding site 880591007127 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 880591007128 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 880591007129 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 880591007130 quinone interaction residues [chemical binding]; other site 880591007131 active site 880591007132 catalytic residues [active] 880591007133 FMN binding site [chemical binding]; other site 880591007134 substrate binding site [chemical binding]; other site 880591007135 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 880591007136 CoenzymeA binding site [chemical binding]; other site 880591007137 subunit interaction site [polypeptide binding]; other site 880591007138 PHB binding site; other site 880591007139 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 880591007140 CoenzymeA binding site [chemical binding]; other site 880591007141 subunit interaction site [polypeptide binding]; other site 880591007142 PHB binding site; other site 880591007143 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 880591007144 DNA binding residues [nucleotide binding] 880591007145 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 880591007146 putative dimer interface [polypeptide binding]; other site 880591007147 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 880591007148 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 880591007149 DNA binding residues [nucleotide binding] 880591007150 putative dimer interface [polypeptide binding]; other site 880591007151 Sporulation related domain; Region: SPOR; pfam05036 880591007152 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 880591007153 active site 880591007154 adenosine deaminase; Provisional; Region: PRK09358 880591007155 active site 880591007156 phosphopentomutase; Provisional; Region: PRK05362 880591007157 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 880591007158 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 880591007159 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 880591007160 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 880591007161 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 880591007162 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 880591007163 active site 880591007164 catalytic motif [active] 880591007165 Zn binding site [ion binding]; other site 880591007166 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 880591007167 ATP-NAD kinase; Region: NAD_kinase; pfam01513 880591007168 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 880591007169 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 880591007170 dimer interface [polypeptide binding]; other site 880591007171 active site 880591007172 glycine-pyridoxal phosphate binding site [chemical binding]; other site 880591007173 folate binding site [chemical binding]; other site 880591007174 acyl-CoA esterase; Provisional; Region: PRK10673 880591007175 PGAP1-like protein; Region: PGAP1; pfam07819 880591007176 GTP-binding protein LepA; Provisional; Region: PRK05433 880591007177 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 880591007178 G1 box; other site 880591007179 putative GEF interaction site [polypeptide binding]; other site 880591007180 GTP/Mg2+ binding site [chemical binding]; other site 880591007181 Switch I region; other site 880591007182 G2 box; other site 880591007183 G3 box; other site 880591007184 Switch II region; other site 880591007185 G4 box; other site 880591007186 G5 box; other site 880591007187 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 880591007188 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 880591007189 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 880591007190 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 880591007191 dimer interface [polypeptide binding]; other site 880591007192 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880591007193 ligand binding site [chemical binding]; other site 880591007194 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 880591007195 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 880591007196 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 880591007197 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 880591007198 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 880591007199 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_9; cd04666 880591007200 nudix motif; other site 880591007201 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 880591007202 ornithine carbamoyltransferase; Provisional; Region: PRK00779 880591007203 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 880591007204 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 880591007205 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 880591007206 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 880591007207 inhibitor-cofactor binding pocket; inhibition site 880591007208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591007209 catalytic residue [active] 880591007210 GcrA cell cycle regulator; Region: GcrA; cl11564 880591007211 GcrA cell cycle regulator; Region: GcrA; cl11564 880591007212 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 880591007213 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 880591007214 CsbD-like; Region: CsbD; cl17424 880591007215 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 880591007216 Aspartase; Region: Aspartase; cd01357 880591007217 active sites [active] 880591007218 tetramer interface [polypeptide binding]; other site 880591007219 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 880591007220 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591007221 Coenzyme A binding pocket [chemical binding]; other site 880591007222 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 880591007223 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 880591007224 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 880591007225 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 880591007226 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 880591007227 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 880591007228 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 880591007229 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 880591007230 N-terminal plug; other site 880591007231 ligand-binding site [chemical binding]; other site 880591007232 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 880591007233 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 880591007234 FecR protein; Region: FecR; pfam04773 880591007235 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 880591007236 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591007237 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880591007238 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 880591007239 putative DNA binding site [nucleotide binding]; other site 880591007240 dimerization interface [polypeptide binding]; other site 880591007241 putative Zn2+ binding site [ion binding]; other site 880591007242 AsnC family; Region: AsnC_trans_reg; pfam01037 880591007243 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 880591007244 Proline dehydrogenase; Region: Pro_dh; pfam01619 880591007245 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 880591007246 NAD(P) binding site [chemical binding]; other site 880591007247 catalytic residues [active] 880591007248 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 880591007249 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880591007250 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 880591007251 active site 880591007252 dimerization interface [polypeptide binding]; other site 880591007253 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 880591007254 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 880591007255 HIGH motif; other site 880591007256 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 880591007257 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591007258 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591007259 active site 880591007260 KMSKS motif; other site 880591007261 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 880591007262 tRNA binding surface [nucleotide binding]; other site 880591007263 anticodon binding site; other site 880591007264 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 880591007265 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 880591007266 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 880591007267 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 880591007268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591007269 homodimer interface [polypeptide binding]; other site 880591007270 catalytic residue [active] 880591007271 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 880591007272 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 880591007273 catalytic residue [active] 880591007274 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 880591007275 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 880591007276 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 880591007277 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880591007278 active site 880591007279 Translation elongation factor P (EF-P)/translation initiation factor 5A (eIF-5A) [Translation, ribosomal structure and biogenesis]; Region: Efp; COG0231 880591007280 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 880591007281 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 880591007282 RNA binding site [nucleotide binding]; other site 880591007283 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 880591007284 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880591007285 ligand binding site [chemical binding]; other site 880591007286 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 880591007287 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 880591007288 putative C-terminal domain interface [polypeptide binding]; other site 880591007289 putative GSH binding site (G-site) [chemical binding]; other site 880591007290 putative dimer interface [polypeptide binding]; other site 880591007291 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 880591007292 dimer interface [polypeptide binding]; other site 880591007293 N-terminal domain interface [polypeptide binding]; other site 880591007294 substrate binding pocket (H-site) [chemical binding]; other site 880591007295 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 880591007296 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 880591007297 Mg2+ binding site [ion binding]; other site 880591007298 G-X-G motif; other site 880591007299 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 880591007300 anchoring element; other site 880591007301 dimer interface [polypeptide binding]; other site 880591007302 ATP binding site [chemical binding]; other site 880591007303 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 880591007304 active site 880591007305 metal binding site [ion binding]; metal-binding site 880591007306 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 880591007307 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 880591007308 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 880591007309 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 880591007310 putative metal binding site [ion binding]; other site 880591007311 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; cl02542 880591007312 HSP70 interaction site [polypeptide binding]; other site 880591007313 NAD synthetase; Provisional; Region: PRK13981 880591007314 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 880591007315 multimer interface [polypeptide binding]; other site 880591007316 active site 880591007317 catalytic triad [active] 880591007318 protein interface 1 [polypeptide binding]; other site 880591007319 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 880591007320 homodimer interface [polypeptide binding]; other site 880591007321 NAD binding pocket [chemical binding]; other site 880591007322 ATP binding pocket [chemical binding]; other site 880591007323 Mg binding site [ion binding]; other site 880591007324 active-site loop [active] 880591007325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 880591007326 MORN repeat; Region: MORN; cl14787 880591007327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 880591007328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 880591007329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 880591007330 2-isopropylmalate synthase; Validated; Region: PRK00915 880591007331 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 880591007332 active site 880591007333 catalytic residues [active] 880591007334 metal binding site [ion binding]; metal-binding site 880591007335 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 880591007336 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 880591007337 Protein of unknown function, DUF486; Region: DUF486; cl01236 880591007338 hypothetical protein; Validated; Region: PRK00110 880591007339 potential frameshift: common BLAST hit: gi|294676438|ref|YP_003577053.1| metallophosphoesterase family protein 880591007340 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880591007341 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880591007342 YmdB-like protein; Region: YmdB; pfam13277 880591007343 active site 880591007344 metal binding site [ion binding]; metal-binding site 880591007345 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 880591007346 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 880591007347 MgtE intracellular N domain; Region: MgtE_N; smart00924 880591007348 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 880591007349 Divalent cation transporter; Region: MgtE; cl00786 880591007350 guanine deaminase; Provisional; Region: PRK09228 880591007351 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 880591007352 active site 880591007353 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 880591007354 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 880591007355 putative DNA binding site [nucleotide binding]; other site 880591007356 putative Zn2+ binding site [ion binding]; other site 880591007357 AsnC family; Region: AsnC_trans_reg; pfam01037 880591007358 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591007359 putative substrate translocation pore; other site 880591007360 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 880591007361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 880591007362 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 880591007363 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 880591007364 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880591007365 active site 880591007366 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880591007367 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 880591007368 non-specific DNA binding site [nucleotide binding]; other site 880591007369 salt bridge; other site 880591007370 sequence-specific DNA binding site [nucleotide binding]; other site 880591007371 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591007372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591007373 LysR substrate binding domain; Region: LysR_substrate; pfam03466 880591007374 dimerization interface [polypeptide binding]; other site 880591007375 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 880591007376 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 880591007377 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 880591007378 Predicted flavoprotein [General function prediction only]; Region: COG0431 880591007379 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 880591007380 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 880591007381 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 880591007382 Nitrogen regulatory protein P-II; Region: P-II; smart00938 880591007383 glutamine synthetase; Provisional; Region: glnA; PRK09469 880591007384 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 880591007385 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 880591007386 adenylosuccinate lyase; Provisional; Region: PRK07492 880591007387 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 880591007388 tetramer interface [polypeptide binding]; other site 880591007389 active site 880591007390 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 880591007391 FliG C-terminal domain; Region: FliG_C; pfam01706 880591007392 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 880591007393 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 880591007394 putative acyl-acceptor binding pocket; other site 880591007395 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 880591007396 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 880591007397 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 880591007398 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 880591007399 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 880591007400 Sporulation related domain; Region: SPOR; pfam05036 880591007401 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 880591007402 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 880591007403 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 880591007404 active site 880591007405 HIGH motif; other site 880591007406 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591007407 KMSK motif region; other site 880591007408 tRNA binding surface [nucleotide binding]; other site 880591007409 DALR anticodon binding domain; Region: DALR_1; smart00836 880591007410 anticodon binding site; other site 880591007411 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 880591007412 DEAD-like helicases superfamily; Region: DEXDc; smart00487 880591007413 ATP binding site [chemical binding]; other site 880591007414 Mg++ binding site [ion binding]; other site 880591007415 motif III; other site 880591007416 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 880591007417 nucleotide binding region [chemical binding]; other site 880591007418 ATP-binding site [chemical binding]; other site 880591007419 conserved hypothetical protein; Region: MG423; TIGR00649 880591007420 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 880591007421 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 880591007422 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 880591007423 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 880591007424 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 880591007425 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 880591007426 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880591007427 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 880591007428 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880591007429 potential frameshift: common BLAST hit: gi|159043876|ref|YP_001532670.1| NADH dehydrogenase subunit L 880591007430 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 880591007431 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 880591007432 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 880591007433 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 880591007434 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 880591007435 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 880591007436 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 880591007437 4Fe-4S binding domain; Region: Fer4; pfam00037 880591007438 4Fe-4S binding domain; Region: Fer4; pfam00037 880591007439 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 880591007440 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 880591007441 NADH dehydrogenase subunit G; Validated; Region: PRK09130 880591007442 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 880591007443 catalytic loop [active] 880591007444 iron binding site [ion binding]; other site 880591007445 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 880591007446 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 880591007447 molybdopterin cofactor binding site; other site 880591007448 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 880591007449 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 880591007450 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 880591007451 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 880591007452 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 880591007453 putative dimer interface [polypeptide binding]; other site 880591007454 [2Fe-2S] cluster binding site [ion binding]; other site 880591007455 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 880591007456 NADH dehydrogenase subunit D; Validated; Region: PRK06075 880591007457 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 880591007458 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 880591007459 NADH dehydrogenase subunit B; Validated; Region: PRK06411 880591007460 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 880591007461 phosphoglycolate phosphatase; Provisional; Region: PRK13222 880591007462 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 880591007463 motif II; other site 880591007464 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 880591007465 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 880591007466 Substrate binding site; other site 880591007467 Mg++ binding site; other site 880591007468 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 880591007469 active site 880591007470 substrate binding site [chemical binding]; other site 880591007471 CoA binding site [chemical binding]; other site 880591007472 A new structural DNA glycosylase; Region: AlkD_like; cl11434 880591007473 active site 880591007474 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880591007475 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 880591007476 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 880591007477 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 880591007478 heme binding site [chemical binding]; other site 880591007479 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 880591007480 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 880591007481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591007482 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 880591007483 dimerization interface [polypeptide binding]; other site 880591007484 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 880591007485 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 880591007486 N-terminal plug; other site 880591007487 ligand-binding site [chemical binding]; other site 880591007488 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 880591007489 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 880591007490 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 880591007491 active site residue [active] 880591007492 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 880591007493 active site residue [active] 880591007494 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 880591007495 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 880591007496 Walker A/P-loop; other site 880591007497 ATP binding site [chemical binding]; other site 880591007498 Q-loop/lid; other site 880591007499 ABC transporter signature motif; other site 880591007500 Walker B; other site 880591007501 D-loop; other site 880591007502 H-loop/switch region; other site 880591007503 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 880591007504 dimer interface [polypeptide binding]; other site 880591007505 conserved gate region; other site 880591007506 ABC-ATPase subunit interface; other site 880591007507 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 880591007508 methionine synthase; Provisional; Region: PRK01207 880591007509 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 880591007510 substrate binding site [chemical binding]; other site 880591007511 THF binding site; other site 880591007512 zinc-binding site [ion binding]; other site 880591007513 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591007514 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591007515 Walker A/P-loop; other site 880591007516 ATP binding site [chemical binding]; other site 880591007517 Q-loop/lid; other site 880591007518 ABC transporter signature motif; other site 880591007519 Walker B; other site 880591007520 D-loop; other site 880591007521 H-loop/switch region; other site 880591007522 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591007523 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591007524 Walker A/P-loop; other site 880591007525 ATP binding site [chemical binding]; other site 880591007526 Q-loop/lid; other site 880591007527 ABC transporter signature motif; other site 880591007528 Walker B; other site 880591007529 D-loop; other site 880591007530 H-loop/switch region; other site 880591007531 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591007532 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 880591007533 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 880591007534 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591007535 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 880591007536 dimer interface [polypeptide binding]; other site 880591007537 conserved gate region; other site 880591007538 putative PBP binding loops; other site 880591007539 ABC-ATPase subunit interface; other site 880591007540 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591007541 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 880591007542 dimer interface [polypeptide binding]; other site 880591007543 conserved gate region; other site 880591007544 putative PBP binding loops; other site 880591007545 ABC-ATPase subunit interface; other site 880591007546 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591007547 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_5; cd08511 880591007548 Secretin and TonB N terminus short domain; Region: STN; smart00965 880591007549 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 880591007550 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 880591007551 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 880591007552 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 880591007553 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591007554 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 880591007555 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 880591007556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 880591007557 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 880591007558 TIGR02300 family protein; Region: FYDLN_acid 880591007559 Protein of unknown function DUF45; Region: DUF45; pfam01863 880591007560 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591007561 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591007562 DNA-binding site [nucleotide binding]; DNA binding site 880591007563 FCD domain; Region: FCD; pfam07729 880591007564 Hemin uptake protein hemP; Region: hemP; pfam10636 880591007565 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 880591007566 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 880591007567 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591007568 NADH(P)-binding; Region: NAD_binding_10; pfam13460 880591007569 NAD(P) binding site [chemical binding]; other site 880591007570 active site 880591007571 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 880591007572 intersubunit interface [polypeptide binding]; other site 880591007573 active site 880591007574 catalytic residue [active] 880591007575 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 880591007576 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 880591007577 NAD(P) binding site [chemical binding]; other site 880591007578 catalytic residues [active] 880591007579 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 880591007580 NAD(P) binding site [chemical binding]; other site 880591007581 Protein of unknown function (DUF330); Region: DUF330; cl01135 880591007582 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 880591007583 mce related protein; Region: MCE; pfam02470 880591007584 mce related protein; Region: MCE; pfam02470 880591007585 Paraquat-inducible protein A; Region: PqiA; pfam04403 880591007586 Paraquat-inducible protein A; Region: PqiA; pfam04403 880591007587 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 880591007588 putative active site pocket [active] 880591007589 4-fold oligomerization interface [polypeptide binding]; other site 880591007590 metal binding residues [ion binding]; metal-binding site 880591007591 3-fold/trimer interface [polypeptide binding]; other site 880591007592 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 880591007593 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 880591007594 putative active site [active] 880591007595 oxyanion strand; other site 880591007596 catalytic triad [active] 880591007597 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 880591007598 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 880591007599 catalytic residues [active] 880591007600 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 880591007601 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 880591007602 substrate binding site [chemical binding]; other site 880591007603 glutamase interaction surface [polypeptide binding]; other site 880591007604 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 880591007605 metal binding site [ion binding]; metal-binding site 880591007606 CoA binding domain; Region: CoA_binding; cl17356 880591007607 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 880591007608 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 880591007609 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 880591007610 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591007611 Isochorismatase family; Region: Isochorismatase; pfam00857 880591007612 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 880591007613 catalytic triad [active] 880591007614 conserved cis-peptide bond; other site 880591007615 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 880591007616 homotrimer interaction site [polypeptide binding]; other site 880591007617 putative active site [active] 880591007618 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 880591007619 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 880591007620 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 880591007621 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 880591007622 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 880591007623 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 880591007624 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 880591007625 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 880591007626 putative trimer interface [polypeptide binding]; other site 880591007627 putative CoA binding site [chemical binding]; other site 880591007628 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 880591007629 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 880591007630 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 880591007631 Rhamnan synthesis protein F; Region: RgpF; pfam05045 880591007632 EamA-like transporter family; Region: EamA; pfam00892 880591007633 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 880591007634 EamA-like transporter family; Region: EamA; pfam00892 880591007635 nuc_hydro_CeIAG: Nucleoside hydrolases similar to the inosine-adenosine-guanosine-preferring nucleoside hydrolase from Caenorhabditis elegans. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_CeIAG; cd02649 880591007636 active site 880591007637 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 880591007638 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 880591007639 putative ligand binding site [chemical binding]; other site 880591007640 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591007641 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 880591007642 TM-ABC transporter signature motif; other site 880591007643 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 880591007644 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 880591007645 TM-ABC transporter signature motif; other site 880591007646 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 880591007647 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 880591007648 Walker A/P-loop; other site 880591007649 ATP binding site [chemical binding]; other site 880591007650 Q-loop/lid; other site 880591007651 ABC transporter signature motif; other site 880591007652 Walker B; other site 880591007653 D-loop; other site 880591007654 H-loop/switch region; other site 880591007655 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 880591007656 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 880591007657 Walker A/P-loop; other site 880591007658 ATP binding site [chemical binding]; other site 880591007659 Q-loop/lid; other site 880591007660 ABC transporter signature motif; other site 880591007661 Walker B; other site 880591007662 D-loop; other site 880591007663 H-loop/switch region; other site 880591007664 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 880591007665 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_12; cd07255 880591007666 putative metal binding site [ion binding]; other site 880591007667 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 880591007668 active site 880591007669 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 880591007670 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 880591007671 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880591007672 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 880591007673 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 880591007674 dimer interface [polypeptide binding]; other site 880591007675 conserved gate region; other site 880591007676 putative PBP binding loops; other site 880591007677 ABC-ATPase subunit interface; other site 880591007678 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 880591007679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591007680 Walker A/P-loop; other site 880591007681 ATP binding site [chemical binding]; other site 880591007682 Q-loop/lid; other site 880591007683 ABC transporter signature motif; other site 880591007684 Walker B; other site 880591007685 D-loop; other site 880591007686 H-loop/switch region; other site 880591007687 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 880591007688 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 880591007689 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880591007690 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 880591007691 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880591007692 Protein of unknown function, DUF481; Region: DUF481; pfam04338 880591007693 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 880591007694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591007695 NAD(P) binding site [chemical binding]; other site 880591007696 active site 880591007697 potential frameshift: common BLAST hit: gi|126463519|ref|YP_001044633.1| peptidase M16 domain-containing protein 880591007698 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880591007699 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880591007700 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 880591007701 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 880591007702 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 880591007703 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 880591007704 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 880591007705 16S rRNA methyltransferase B; Provisional; Region: PRK10901 880591007706 NusB family; Region: NusB; pfam01029 880591007707 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 880591007708 S-adenosylmethionine binding site [chemical binding]; other site 880591007709 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 880591007710 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 880591007711 Predicted esterase [General function prediction only]; Region: COG0400 880591007712 Serine hydrolase (FSH1); Region: FSH1; pfam03959 880591007713 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 880591007714 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 880591007715 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880591007716 Zn binding site [ion binding]; other site 880591007717 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 880591007718 active site 880591007719 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 880591007720 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 880591007721 NAD binding site [chemical binding]; other site 880591007722 catalytic residues [active] 880591007723 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 880591007724 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 880591007725 dimer interface [polypeptide binding]; other site 880591007726 decamer (pentamer of dimers) interface [polypeptide binding]; other site 880591007727 catalytic triad [active] 880591007728 recombination protein F; Reviewed; Region: recF; PRK00064 880591007729 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591007730 Walker A/P-loop; other site 880591007731 ATP binding site [chemical binding]; other site 880591007732 Q-loop/lid; other site 880591007733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591007734 ABC transporter signature motif; other site 880591007735 Walker B; other site 880591007736 D-loop; other site 880591007737 H-loop/switch region; other site 880591007738 DNA polymerase III subunit beta; Validated; Region: PRK05643 880591007739 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 880591007740 putative DNA binding surface [nucleotide binding]; other site 880591007741 dimer interface [polypeptide binding]; other site 880591007742 beta-clamp/clamp loader binding surface; other site 880591007743 beta-clamp/translesion DNA polymerase binding surface; other site 880591007744 DnaA N-terminal domain; Region: DnaA_N; pfam11638 880591007745 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 880591007746 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 880591007747 Walker A motif; other site 880591007748 ATP binding site [chemical binding]; other site 880591007749 Walker B motif; other site 880591007750 arginine finger; other site 880591007751 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 880591007752 DnaA box-binding interface [nucleotide binding]; other site 880591007753 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 880591007754 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 880591007755 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 880591007756 DNA binding site [nucleotide binding] 880591007757 catalytic residue [active] 880591007758 H2TH interface [polypeptide binding]; other site 880591007759 putative catalytic residues [active] 880591007760 turnover-facilitating residue; other site 880591007761 intercalation triad [nucleotide binding]; other site 880591007762 8OG recognition residue [nucleotide binding]; other site 880591007763 putative reading head residues; other site 880591007764 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 880591007765 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 880591007766 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 880591007767 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 880591007768 S-adenosylmethionine binding site [chemical binding]; other site 880591007769 ABC1 family; Region: ABC1; cl17513 880591007770 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 880591007771 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 880591007772 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 880591007773 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 880591007774 Rod binding protein; Region: Rod-binding; pfam10135 880591007775 potential frameshift: common BLAST hit: gi|56698282|ref|YP_168655.1| flagellin protein 880591007776 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 880591007777 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 880591007778 Flagellar protein FlaF; Region: FlaF; cl11454 880591007779 Flagellar protein FlbT; Region: FlbT; pfam07378 880591007780 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 880591007781 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 880591007782 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 880591007783 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 880591007784 Walker A motif; other site 880591007785 ATP binding site [chemical binding]; other site 880591007786 Walker B motif; other site 880591007787 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 880591007788 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 880591007789 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 880591007790 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 880591007791 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 880591007792 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 880591007793 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 880591007794 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 880591007795 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 880591007796 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 880591007797 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 880591007798 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 880591007799 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 880591007800 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12788 880591007801 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 880591007802 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 880591007803 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 880591007804 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 880591007805 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 880591007806 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 880591007807 FHIPEP family; Region: FHIPEP; pfam00771 880591007808 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 880591007809 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880591007810 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 880591007811 flagellar motor protein MotA; Validated; Region: PRK09110 880591007812 Uncharacterized conserved protein [Function unknown]; Region: COG3334 880591007813 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 880591007814 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 880591007815 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 880591007816 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 880591007817 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 880591007818 FliP family; Region: FliP; cl00593 880591007819 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 880591007820 Flagellar P-ring protein; Region: FlgI; pfam02119 880591007821 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 880591007822 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 880591007823 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 880591007824 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 880591007825 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 880591007826 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 880591007827 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 880591007828 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 880591007829 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 880591007830 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 880591007831 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 880591007832 ligand binding site [chemical binding]; other site 880591007833 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 880591007834 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 880591007835 active site 880591007836 dimer interface [polypeptide binding]; other site 880591007837 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 880591007838 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 880591007839 active site 880591007840 FMN binding site [chemical binding]; other site 880591007841 substrate binding site [chemical binding]; other site 880591007842 3Fe-4S cluster binding site [ion binding]; other site 880591007843 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 880591007844 domain interface; other site 880591007845 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 880591007846 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880591007847 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 880591007848 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 880591007849 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 880591007850 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 880591007851 putative NAD(P) binding site [chemical binding]; other site 880591007852 active site 880591007853 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880591007854 Beta-lactamase; Region: Beta-lactamase; pfam00144 880591007855 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 880591007856 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 880591007857 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 880591007858 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 880591007859 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 880591007860 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 880591007861 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 880591007862 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 880591007863 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 880591007864 Subunit I/III interface [polypeptide binding]; other site 880591007865 Dimer interface; other site 880591007866 Subunit I/VIa interface [polypeptide binding]; other site 880591007867 Subunit I/II interface [polypeptide binding]; other site 880591007868 Putative water exit pathway; other site 880591007869 Binuclear center (heme a3/CuB) [ion binding]; other site 880591007870 K-pathway; other site 880591007871 Subunit I/Vb interface [polypeptide binding]; other site 880591007872 Putative proton exit pathway; other site 880591007873 Subunit I/VIb interface; other site 880591007874 Subunit I/VIc interface [polypeptide binding]; other site 880591007875 Electron transfer pathway; other site 880591007876 Low-spin heme (heme a) binding site [chemical binding]; other site 880591007877 Subunit I/IV interface [polypeptide binding]; other site 880591007878 Subunit I/VIIIb interface [polypeptide binding]; other site 880591007879 Subunit I/VIIb interface [polypeptide binding]; other site 880591007880 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 880591007881 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 880591007882 TMP-binding site; other site 880591007883 ATP-binding site [chemical binding]; other site 880591007884 DNA polymerase III subunit delta'; Validated; Region: PRK07471 880591007885 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 880591007886 active site 880591007887 putative hydrolase; Provisional; Region: PRK02113 880591007888 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 880591007889 Predicted permeases [General function prediction only]; Region: COG0679 880591007890 H-type lectin domain; Region: H_lectin; pfam09458 880591007891 Peptidase propeptide and YPEB domain; Region: PepSY_2; cl17877 880591007892 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880591007893 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 880591007894 DNA binding residues [nucleotide binding] 880591007895 dimerization interface [polypeptide binding]; other site 880591007896 homoserine dehydrogenase; Provisional; Region: PRK06349 880591007897 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 880591007898 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 880591007899 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 880591007900 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 880591007901 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 880591007902 putative active site [active] 880591007903 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 880591007904 DHH family; Region: DHH; pfam01368 880591007905 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 880591007906 nickel responsive regulator; Provisional; Region: PRK02967 880591007907 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 880591007908 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 880591007909 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 880591007910 peptide binding site [polypeptide binding]; other site 880591007911 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 880591007912 Ubiquitin-like proteins; Region: UBQ; cl00155 880591007913 charged pocket; other site 880591007914 hydrophobic patch; other site 880591007915 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 880591007916 dimer interface [polypeptide binding]; other site 880591007917 conserved gate region; other site 880591007918 putative PBP binding loops; other site 880591007919 ABC-ATPase subunit interface; other site 880591007920 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 880591007921 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 880591007922 dimer interface [polypeptide binding]; other site 880591007923 conserved gate region; other site 880591007924 putative PBP binding loops; other site 880591007925 ABC-ATPase subunit interface; other site 880591007926 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 880591007927 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591007928 Walker A/P-loop; other site 880591007929 ATP binding site [chemical binding]; other site 880591007930 Q-loop/lid; other site 880591007931 ABC transporter signature motif; other site 880591007932 Walker B; other site 880591007933 D-loop; other site 880591007934 H-loop/switch region; other site 880591007935 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591007936 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591007937 Walker A/P-loop; other site 880591007938 ATP binding site [chemical binding]; other site 880591007939 Q-loop/lid; other site 880591007940 ABC transporter signature motif; other site 880591007941 Walker B; other site 880591007942 D-loop; other site 880591007943 H-loop/switch region; other site 880591007944 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 880591007945 putative active site [active] 880591007946 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 880591007947 Protein of unknown function (DUF1190); Region: DUF1190; pfam06693 880591007948 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 880591007949 Radical SAM superfamily; Region: Radical_SAM; pfam04055 880591007950 FeS/SAM binding site; other site 880591007951 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 880591007952 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 880591007953 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 880591007954 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 880591007955 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 880591007956 CysD dimerization site [polypeptide binding]; other site 880591007957 G1 box; other site 880591007958 putative GEF interaction site [polypeptide binding]; other site 880591007959 GTP/Mg2+ binding site [chemical binding]; other site 880591007960 Switch I region; other site 880591007961 G2 box; other site 880591007962 G3 box; other site 880591007963 Switch II region; other site 880591007964 G4 box; other site 880591007965 G5 box; other site 880591007966 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 880591007967 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 880591007968 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 880591007969 ligand-binding site [chemical binding]; other site 880591007970 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 880591007971 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 880591007972 Active Sites [active] 880591007973 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 880591007974 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 880591007975 putative active site [active] 880591007976 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 880591007977 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 880591007978 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 880591007979 putative active site cavity [active] 880591007980 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591007981 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 880591007982 dimer interface [polypeptide binding]; other site 880591007983 conserved gate region; other site 880591007984 putative PBP binding loops; other site 880591007985 ABC-ATPase subunit interface; other site 880591007986 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 880591007987 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 880591007988 dimer interface [polypeptide binding]; other site 880591007989 conserved gate region; other site 880591007990 putative PBP binding loops; other site 880591007991 ABC-ATPase subunit interface; other site 880591007992 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 880591007993 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 880591007994 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 880591007995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591007996 Walker A/P-loop; other site 880591007997 ATP binding site [chemical binding]; other site 880591007998 Q-loop/lid; other site 880591007999 ABC transporter signature motif; other site 880591008000 Walker B; other site 880591008001 D-loop; other site 880591008002 H-loop/switch region; other site 880591008003 TOBE domain; Region: TOBE_2; pfam08402 880591008004 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 880591008005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591008006 DNA-binding site [nucleotide binding]; DNA binding site 880591008007 UTRA domain; Region: UTRA; pfam07702 880591008008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 880591008009 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 880591008010 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 880591008011 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 880591008012 active site 880591008013 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 880591008014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591008015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591008016 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 880591008017 dimerization interface [polypeptide binding]; other site 880591008018 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 880591008019 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 880591008020 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 880591008021 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 880591008022 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 880591008023 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 880591008024 Walker A/P-loop; other site 880591008025 ATP binding site [chemical binding]; other site 880591008026 Q-loop/lid; other site 880591008027 ABC transporter signature motif; other site 880591008028 Walker B; other site 880591008029 D-loop; other site 880591008030 H-loop/switch region; other site 880591008031 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 880591008032 Methyltransferase domain; Region: Methyltransf_23; pfam13489 880591008033 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 880591008034 S-adenosylmethionine binding site [chemical binding]; other site 880591008035 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 880591008036 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 880591008037 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 880591008038 GDP-Fucose binding site [chemical binding]; other site 880591008039 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 880591008040 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 880591008041 Bacterial transcriptional regulator; Region: IclR; pfam01614 880591008042 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 880591008043 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 880591008044 Hint domain; Region: Hint_2; pfam13403 880591008045 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 880591008046 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 880591008047 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 880591008048 FeS/SAM binding site; other site 880591008049 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 880591008050 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 880591008051 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 880591008052 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 880591008053 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 880591008054 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 880591008055 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 880591008056 active site residue [active] 880591008057 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 880591008058 active site residue [active] 880591008059 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880591008060 Beta-lactamase; Region: Beta-lactamase; pfam00144 880591008061 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 880591008062 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 880591008063 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 880591008064 potential frameshift: common BLAST hit: gi|118469932|ref|YP_888123.1| 4-hydroxyacetophenone monooxygenase 880591008065 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 880591008066 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 880591008067 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 880591008068 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 880591008069 classical (c) SDRs; Region: SDR_c; cd05233 880591008070 NAD(P) binding site [chemical binding]; other site 880591008071 active site 880591008072 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 880591008073 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 880591008074 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 880591008075 DctM-like transporters; Region: DctM; pfam06808 880591008076 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 880591008077 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 880591008078 putative active site [active] 880591008079 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 880591008080 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880591008081 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 880591008082 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 880591008083 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 880591008084 carboxyltransferase (CT) interaction site; other site 880591008085 biotinylation site [posttranslational modification]; other site 880591008086 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 880591008087 ATP-grasp domain; Region: ATP-grasp_4; cl17255 880591008088 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 880591008089 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 880591008090 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 880591008091 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591008092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591008093 DNA-binding site [nucleotide binding]; DNA binding site 880591008094 FCD domain; Region: FCD; pfam07729 880591008095 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 880591008096 ATP binding site [chemical binding]; other site 880591008097 G-X-G motif; other site 880591008098 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 880591008099 dimer interface [polypeptide binding]; other site 880591008100 phosphorylation site [posttranslational modification] 880591008101 osmolarity response regulator; Provisional; Region: ompR; PRK09468 880591008102 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 880591008103 active site 880591008104 phosphorylation site [posttranslational modification] 880591008105 intermolecular recognition site; other site 880591008106 dimerization interface [polypeptide binding]; other site 880591008107 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 880591008108 DNA binding site [nucleotide binding] 880591008109 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 880591008110 active site 880591008111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 880591008112 Predicted transcriptional regulators [Transcription]; Region: COG1733 880591008113 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 880591008114 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 880591008115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 880591008116 NAD(P) binding site [chemical binding]; other site 880591008117 active site 880591008118 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 880591008119 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 880591008120 active site 880591008121 Transcriptional regulators [Transcription]; Region: MarR; COG1846 880591008122 MarR family; Region: MarR_2; pfam12802 880591008123 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 880591008124 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 880591008125 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 880591008126 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 880591008127 DNA binding site [nucleotide binding] 880591008128 active site 880591008129 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880591008130 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 880591008131 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 880591008132 ATP binding site [chemical binding]; other site 880591008133 Mg2+ binding site [ion binding]; other site 880591008134 G-X-G motif; other site 880591008135 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 880591008136 Ribonuclease P; Region: Ribonuclease_P; pfam00825 880591008137 Haemolytic domain; Region: Haemolytic; pfam01809 880591008138 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 880591008139 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 880591008140 Ligand Binding Site [chemical binding]; other site 880591008141 membrane protein insertase; Provisional; Region: PRK01318 880591008142 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 880591008143 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 880591008144 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 880591008145 MOSC domain; Region: MOSC; pfam03473 880591008146 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 880591008147 G1 box; other site 880591008148 GTP/Mg2+ binding site [chemical binding]; other site 880591008149 Switch I region; other site 880591008150 G2 box; other site 880591008151 G3 box; other site 880591008152 Switch II region; other site 880591008153 G4 box; other site 880591008154 G5 box; other site 880591008155 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 880591008156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591008157 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 880591008158 dimerization interface [polypeptide binding]; other site 880591008159 Lysine efflux permease [General function prediction only]; Region: COG1279 880591008160 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 880591008161 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 880591008162 Walker A/P-loop; other site 880591008163 ATP binding site [chemical binding]; other site 880591008164 Q-loop/lid; other site 880591008165 ABC transporter signature motif; other site 880591008166 Walker B; other site 880591008167 D-loop; other site 880591008168 H-loop/switch region; other site 880591008169 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 880591008170 dimer interface [polypeptide binding]; other site 880591008171 conserved gate region; other site 880591008172 putative PBP binding loops; other site 880591008173 ABC-ATPase subunit interface; other site 880591008174 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 880591008175 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 880591008176 conserved gate region; other site 880591008177 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 880591008178 dimer interface [polypeptide binding]; other site 880591008179 ABC-ATPase subunit interface; other site 880591008180 putative PBP binding loops; other site 880591008181 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 880591008182 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 880591008183 substrate binding pocket [chemical binding]; other site 880591008184 membrane-bound complex binding site; other site 880591008185 hinge residues; other site 880591008186 ATP12 chaperone protein; Region: ATP12; pfam07542 880591008187 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 880591008188 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 880591008189 motif II; other site 880591008190 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880591008191 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 880591008192 RNA binding surface [nucleotide binding]; other site 880591008193 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880591008194 active site 880591008195 CrcB-like protein; Region: CRCB; cl09114 880591008196 recombination factor protein RarA; Reviewed; Region: PRK13342 880591008197 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 880591008198 Walker A motif; other site 880591008199 ATP binding site [chemical binding]; other site 880591008200 Walker B motif; other site 880591008201 arginine finger; other site 880591008202 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 880591008203 Autoinducer synthetase; Region: Autoind_synth; cl17404 880591008204 Autoinducer binding domain; Region: Autoind_bind; pfam03472 880591008205 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880591008206 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 880591008207 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 880591008208 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 880591008209 alphaNTD - beta interaction site [polypeptide binding]; other site 880591008210 alphaNTD homodimer interface [polypeptide binding]; other site 880591008211 alphaNTD - beta' interaction site [polypeptide binding]; other site 880591008212 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 880591008213 30S ribosomal protein S11; Validated; Region: PRK05309 880591008214 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 880591008215 30S ribosomal protein S13; Region: bact_S13; TIGR03631 880591008216 adenylate kinase; Reviewed; Region: adk; PRK00279 880591008217 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 880591008218 AMP-binding site [chemical binding]; other site 880591008219 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 880591008220 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 880591008221 SecY translocase; Region: SecY; pfam00344 880591008222 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 880591008223 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 880591008224 23S rRNA binding site [nucleotide binding]; other site 880591008225 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 880591008226 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 880591008227 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 880591008228 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 880591008229 5S rRNA interface [nucleotide binding]; other site 880591008230 L27 interface [polypeptide binding]; other site 880591008231 23S rRNA interface [nucleotide binding]; other site 880591008232 L5 interface [polypeptide binding]; other site 880591008233 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 880591008234 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 880591008235 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 880591008236 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 880591008237 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 880591008238 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 880591008239 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 880591008240 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 880591008241 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 880591008242 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 880591008243 RNA binding site [nucleotide binding]; other site 880591008244 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 880591008245 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 880591008246 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 880591008247 23S rRNA interface [nucleotide binding]; other site 880591008248 5S rRNA interface [nucleotide binding]; other site 880591008249 putative antibiotic binding site [chemical binding]; other site 880591008250 L25 interface [polypeptide binding]; other site 880591008251 L27 interface [polypeptide binding]; other site 880591008252 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 880591008253 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 880591008254 G-X-X-G motif; other site 880591008255 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 880591008256 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 880591008257 protein-rRNA interface [nucleotide binding]; other site 880591008258 putative translocon binding site; other site 880591008259 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 880591008260 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 880591008261 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 880591008262 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 880591008263 elongation factor Tu; Reviewed; Region: PRK00049 880591008264 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 880591008265 G1 box; other site 880591008266 GEF interaction site [polypeptide binding]; other site 880591008267 GTP/Mg2+ binding site [chemical binding]; other site 880591008268 Switch I region; other site 880591008269 G2 box; other site 880591008270 G3 box; other site 880591008271 Switch II region; other site 880591008272 G4 box; other site 880591008273 G5 box; other site 880591008274 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 880591008275 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 880591008276 Antibiotic Binding Site [chemical binding]; other site 880591008277 elongation factor G; Reviewed; Region: PRK00007 880591008278 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 880591008279 G1 box; other site 880591008280 putative GEF interaction site [polypeptide binding]; other site 880591008281 GTP/Mg2+ binding site [chemical binding]; other site 880591008282 Switch I region; other site 880591008283 G2 box; other site 880591008284 G3 box; other site 880591008285 Switch II region; other site 880591008286 G4 box; other site 880591008287 G5 box; other site 880591008288 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 880591008289 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 880591008290 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 880591008291 30S ribosomal protein S7; Validated; Region: PRK05302 880591008292 30S ribosomal protein S12; Validated; Region: rpsL; PRK05163 880591008293 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 880591008294 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 880591008295 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 880591008296 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 880591008297 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 880591008298 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 880591008299 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 880591008300 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 880591008301 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 880591008302 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 880591008303 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 880591008304 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 880591008305 DNA binding site [nucleotide binding] 880591008306 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 880591008307 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 880591008308 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 880591008309 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 880591008310 RPB11 interaction site [polypeptide binding]; other site 880591008311 RPB12 interaction site [polypeptide binding]; other site 880591008312 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 880591008313 RPB3 interaction site [polypeptide binding]; other site 880591008314 RPB1 interaction site [polypeptide binding]; other site 880591008315 RPB11 interaction site [polypeptide binding]; other site 880591008316 RPB10 interaction site [polypeptide binding]; other site 880591008317 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 880591008318 core dimer interface [polypeptide binding]; other site 880591008319 peripheral dimer interface [polypeptide binding]; other site 880591008320 L10 interface [polypeptide binding]; other site 880591008321 L11 interface [polypeptide binding]; other site 880591008322 putative EF-Tu interaction site [polypeptide binding]; other site 880591008323 putative EF-G interaction site [polypeptide binding]; other site 880591008324 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 880591008325 23S rRNA interface [nucleotide binding]; other site 880591008326 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 880591008327 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 880591008328 mRNA/rRNA interface [nucleotide binding]; other site 880591008329 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 880591008330 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 880591008331 23S rRNA interface [nucleotide binding]; other site 880591008332 L7/L12 interface [polypeptide binding]; other site 880591008333 putative thiostrepton binding site; other site 880591008334 L25 interface [polypeptide binding]; other site 880591008335 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 880591008336 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 880591008337 putative homodimer interface [polypeptide binding]; other site 880591008338 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 880591008339 heterodimer interface [polypeptide binding]; other site 880591008340 homodimer interface [polypeptide binding]; other site 880591008341 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 880591008342 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 880591008343 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 880591008344 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 880591008345 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880591008346 active site 880591008347 metal binding site [ion binding]; metal-binding site 880591008348 elongation factor Tu; Reviewed; Region: PRK00049 880591008349 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 880591008350 G1 box; other site 880591008351 GEF interaction site [polypeptide binding]; other site 880591008352 GTP/Mg2+ binding site [chemical binding]; other site 880591008353 Switch I region; other site 880591008354 G2 box; other site 880591008355 G3 box; other site 880591008356 Switch II region; other site 880591008357 G4 box; other site 880591008358 G5 box; other site 880591008359 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 880591008360 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 880591008361 Antibiotic Binding Site [chemical binding]; other site 880591008362 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 880591008363 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 880591008364 CAP-like domain; other site 880591008365 active site 880591008366 primary dimer interface [polypeptide binding]; other site 880591008367 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 880591008368 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 880591008369 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 880591008370 phosphoglyceromutase; Provisional; Region: PRK05434 880591008371 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 880591008372 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 880591008373 Peptidase family M23; Region: Peptidase_M23; pfam01551 880591008374 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 880591008375 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 880591008376 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 880591008377 protein binding site [polypeptide binding]; other site 880591008378 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 880591008379 Catalytic dyad [active] 880591008380 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 880591008381 putative active site [active] 880591008382 Ap4A binding site [chemical binding]; other site 880591008383 nudix motif; other site 880591008384 putative metal binding site [ion binding]; other site 880591008385 ribonuclease R; Region: RNase_R; TIGR02063 880591008386 RNB domain; Region: RNB; pfam00773 880591008387 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 880591008388 RNA binding site [nucleotide binding]; other site 880591008389 short chain dehydrogenase; Provisional; Region: PRK08339 880591008390 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 880591008391 putative NAD(P) binding site [chemical binding]; other site 880591008392 putative active site [active] 880591008393 Transglycosylase SLT domain; Region: SLT_2; pfam13406 880591008394 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 880591008395 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880591008396 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 880591008397 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 880591008398 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 880591008399 metal binding site [ion binding]; metal-binding site 880591008400 dimer interface [polypeptide binding]; other site 880591008401 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 880591008402 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 880591008403 trimer interface [polypeptide binding]; other site 880591008404 active site 880591008405 substrate binding site [chemical binding]; other site 880591008406 CoA binding site [chemical binding]; other site 880591008407 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 880591008408 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 880591008409 FeS/SAM binding site; other site 880591008410 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 880591008411 Cytochrome c; Region: Cytochrom_C; pfam00034 880591008412 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 880591008413 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591008414 Trp docking motif [polypeptide binding]; other site 880591008415 active site 880591008416 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 880591008417 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 880591008418 substrate binding pocket [chemical binding]; other site 880591008419 membrane-bound complex binding site; other site 880591008420 hinge residues; other site 880591008421 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 880591008422 active site 880591008423 putative substrate binding region [chemical binding]; other site 880591008424 von Willebrand factor type A domain; Region: VWA_2; pfam13519 880591008425 metal ion-dependent adhesion site (MIDAS); other site 880591008426 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 880591008427 MoxR-like ATPases [General function prediction only]; Region: COG0714 880591008428 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 880591008429 Walker A motif; other site 880591008430 ATP binding site [chemical binding]; other site 880591008431 Walker B motif; other site 880591008432 arginine finger; other site 880591008433 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 880591008434 Protein of unknown function DUF58; Region: DUF58; pfam01882 880591008435 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 880591008436 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591008437 Walker A/P-loop; other site 880591008438 ATP binding site [chemical binding]; other site 880591008439 Q-loop/lid; other site 880591008440 ABC transporter signature motif; other site 880591008441 Walker B; other site 880591008442 D-loop; other site 880591008443 H-loop/switch region; other site 880591008444 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 880591008445 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 880591008446 dimer interface [polypeptide binding]; other site 880591008447 conserved gate region; other site 880591008448 putative PBP binding loops; other site 880591008449 ABC-ATPase subunit interface; other site 880591008450 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 880591008451 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 880591008452 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 880591008453 Walker A/P-loop; other site 880591008454 ATP binding site [chemical binding]; other site 880591008455 Q-loop/lid; other site 880591008456 ABC transporter signature motif; other site 880591008457 Walker B; other site 880591008458 D-loop; other site 880591008459 H-loop/switch region; other site 880591008460 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 880591008461 ABC-2 type transporter; Region: ABC2_membrane; cl17235 880591008462 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 880591008463 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 880591008464 substrate binding pocket [chemical binding]; other site 880591008465 membrane-bound complex binding site; other site 880591008466 hinge residues; other site 880591008467 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 880591008468 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 880591008469 Transmembrane secretion effector; Region: MFS_3; pfam05977 880591008470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591008471 putative substrate translocation pore; other site 880591008472 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 880591008473 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 880591008474 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 880591008475 ABC-ATPase subunit interface; other site 880591008476 dimer interface [polypeptide binding]; other site 880591008477 putative PBP binding regions; other site 880591008478 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 880591008479 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 880591008480 ABC-ATPase subunit interface; other site 880591008481 dimer interface [polypeptide binding]; other site 880591008482 putative PBP binding regions; other site 880591008483 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 880591008484 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 880591008485 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 880591008486 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 880591008487 metal binding site [ion binding]; metal-binding site 880591008488 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 880591008489 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591008490 Trp docking motif [polypeptide binding]; other site 880591008491 active site 880591008492 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 880591008493 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 880591008494 Protein of unknown function (DUF563); Region: DUF563; pfam04577 880591008495 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 880591008496 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 880591008497 Walker A/P-loop; other site 880591008498 ATP binding site [chemical binding]; other site 880591008499 Q-loop/lid; other site 880591008500 ABC transporter signature motif; other site 880591008501 Walker B; other site 880591008502 D-loop; other site 880591008503 H-loop/switch region; other site 880591008504 TOBE domain; Region: TOBE_2; pfam08402 880591008505 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591008506 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 880591008507 dimer interface [polypeptide binding]; other site 880591008508 conserved gate region; other site 880591008509 putative PBP binding loops; other site 880591008510 ABC-ATPase subunit interface; other site 880591008511 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 880591008512 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 880591008513 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 880591008514 dimer interface [polypeptide binding]; other site 880591008515 conserved gate region; other site 880591008516 putative PBP binding loops; other site 880591008517 ABC-ATPase subunit interface; other site 880591008518 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880591008519 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 880591008520 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 880591008521 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 880591008522 active site 880591008523 catalytic site [active] 880591008524 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 880591008525 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 880591008526 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 880591008527 Transporter associated domain; Region: CorC_HlyC; smart01091 880591008528 putative acetyltransferase YhhY; Provisional; Region: PRK10140 880591008529 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 880591008530 Coenzyme A binding pocket [chemical binding]; other site 880591008531 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 880591008532 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 880591008533 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 880591008534 NAD binding site [chemical binding]; other site 880591008535 substrate binding site [chemical binding]; other site 880591008536 homodimer interface [polypeptide binding]; other site 880591008537 active site 880591008538 Cupin domain; Region: Cupin_2; cl17218 880591008539 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591008540 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_2; cd08498 880591008541 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591008542 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 880591008543 dimer interface [polypeptide binding]; other site 880591008544 conserved gate region; other site 880591008545 putative PBP binding loops; other site 880591008546 ABC-ATPase subunit interface; other site 880591008547 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591008548 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 880591008549 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 880591008550 dimer interface [polypeptide binding]; other site 880591008551 conserved gate region; other site 880591008552 ABC-ATPase subunit interface; other site 880591008553 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591008554 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591008555 Walker A/P-loop; other site 880591008556 ATP binding site [chemical binding]; other site 880591008557 Q-loop/lid; other site 880591008558 ABC transporter signature motif; other site 880591008559 Walker B; other site 880591008560 D-loop; other site 880591008561 H-loop/switch region; other site 880591008562 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591008563 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591008564 Walker A/P-loop; other site 880591008565 ATP binding site [chemical binding]; other site 880591008566 Q-loop/lid; other site 880591008567 ABC transporter signature motif; other site 880591008568 Walker B; other site 880591008569 D-loop; other site 880591008570 H-loop/switch region; other site 880591008571 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591008572 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 880591008573 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 880591008574 active site 880591008575 non-prolyl cis peptide bond; other site 880591008576 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 880591008577 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 880591008578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 880591008579 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 880591008580 active site 880591008581 UGMP family protein; Validated; Region: PRK09604 880591008582 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 880591008583 Fumble; Region: Fumble; cl17357 880591008584 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 880591008585 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 880591008586 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 880591008587 YciI-like protein; Reviewed; Region: PRK12863 880591008588 EVE domain; Region: EVE; cl00728 880591008589 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 880591008590 catalytic site [active] 880591008591 putative active site [active] 880591008592 putative substrate binding site [chemical binding]; other site 880591008593 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 880591008594 OstA-like protein; Region: OstA; pfam03968 880591008595 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 880591008596 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 880591008597 Walker A/P-loop; other site 880591008598 ATP binding site [chemical binding]; other site 880591008599 Q-loop/lid; other site 880591008600 ABC transporter signature motif; other site 880591008601 Walker B; other site 880591008602 D-loop; other site 880591008603 H-loop/switch region; other site 880591008604 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 880591008605 30S subunit binding site; other site 880591008606 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 880591008607 active site 880591008608 phosphorylation site [posttranslational modification] 880591008609 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 880591008610 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 880591008611 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 880591008612 substrate binding site [chemical binding]; other site 880591008613 hexamer interface [polypeptide binding]; other site 880591008614 metal binding site [ion binding]; metal-binding site 880591008615 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 880591008616 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 880591008617 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 880591008618 catalytic triad [active] 880591008619 conserved cis-peptide bond; other site 880591008620 Core-2/I-Branching enzyme; Region: Branch; pfam02485 880591008621 active site 880591008622 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 880591008623 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 880591008624 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 880591008625 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 880591008626 active site 880591008627 tetramer interface; other site 880591008628 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 880591008629 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 880591008630 Ligand binding site; other site 880591008631 oligomer interface; other site 880591008632 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880591008633 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 880591008634 active site 880591008635 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 880591008636 ABC-2 type transporter; Region: ABC2_membrane; cl17235 880591008637 hypothetical protein; Provisional; Region: PRK14013 880591008638 hypothetical protein; Reviewed; Region: PRK00024 880591008639 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 880591008640 MPN+ (JAMM) motif; other site 880591008641 Zinc-binding site [ion binding]; other site 880591008642 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 880591008643 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 880591008644 SEC-C motif; Region: SEC-C; pfam02810 880591008645 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 880591008646 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 880591008647 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 880591008648 heterotetramer interface [polypeptide binding]; other site 880591008649 active site pocket [active] 880591008650 cleavage site 880591008651 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 880591008652 active site 880591008653 8-oxo-dGMP binding site [chemical binding]; other site 880591008654 nudix motif; other site 880591008655 metal binding site [ion binding]; metal-binding site 880591008656 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 880591008657 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 880591008658 FMN binding site [chemical binding]; other site 880591008659 active site 880591008660 substrate binding site [chemical binding]; other site 880591008661 catalytic residue [active] 880591008662 DctM-like transporters; Region: DctM; pfam06808 880591008663 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 880591008664 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 880591008665 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 880591008666 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 880591008667 substrate binding site [chemical binding]; other site 880591008668 THF binding site; other site 880591008669 zinc-binding site [ion binding]; other site 880591008670 translation initiation factor IF-2; Region: IF-2; TIGR00487 880591008671 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 880591008672 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 880591008673 G1 box; other site 880591008674 putative GEF interaction site [polypeptide binding]; other site 880591008675 GTP/Mg2+ binding site [chemical binding]; other site 880591008676 Switch I region; other site 880591008677 G2 box; other site 880591008678 G3 box; other site 880591008679 Switch II region; other site 880591008680 G4 box; other site 880591008681 G5 box; other site 880591008682 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 880591008683 Translation-initiation factor 2; Region: IF-2; pfam11987 880591008684 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 880591008685 hypothetical protein; Provisional; Region: PRK09190 880591008686 Protein of unknown function (DUF448); Region: DUF448; pfam04296 880591008687 putative RNA binding cleft [nucleotide binding]; other site 880591008688 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 880591008689 NusA N-terminal domain; Region: NusA_N; pfam08529 880591008690 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 880591008691 RNA binding site [nucleotide binding]; other site 880591008692 homodimer interface [polypeptide binding]; other site 880591008693 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 880591008694 G-X-X-G motif; other site 880591008695 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 880591008696 G-X-X-G motif; other site 880591008697 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 880591008698 ribosome maturation protein RimP; Reviewed; Region: PRK00092 880591008699 Sm and related proteins; Region: Sm_like; cl00259 880591008700 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 880591008701 putative oligomer interface [polypeptide binding]; other site 880591008702 putative RNA binding site [nucleotide binding]; other site 880591008703 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591008704 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591008705 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591008706 potential frameshift: common BLAST hit: gi|99082747|ref|YP_614901.1| prolyl aminopeptidase 880591008707 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 880591008708 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 880591008709 MarR family; Region: MarR_2; pfam12802 880591008710 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 880591008711 putative active site [active] 880591008712 catalytic triad [active] 880591008713 dimer interface [polypeptide binding]; other site 880591008714 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 880591008715 GSH binding site [chemical binding]; other site 880591008716 catalytic residues [active] 880591008717 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 880591008718 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 880591008719 ferrochelatase; Reviewed; Region: hemH; PRK00035 880591008720 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 880591008721 C-terminal domain interface [polypeptide binding]; other site 880591008722 active site 880591008723 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 880591008724 active site 880591008725 N-terminal domain interface [polypeptide binding]; other site 880591008726 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 880591008727 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 880591008728 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 880591008729 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 880591008730 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 880591008731 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 880591008732 S-adenosylmethionine binding site [chemical binding]; other site 880591008733 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 880591008734 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 880591008735 active site 880591008736 NTP binding site [chemical binding]; other site 880591008737 metal binding triad [ion binding]; metal-binding site 880591008738 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 880591008739 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 880591008740 dimerization interface [polypeptide binding]; other site 880591008741 domain crossover interface; other site 880591008742 redox-dependent activation switch; other site 880591008743 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, 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_25; cd04684 880591008744 nudix motif; other site 880591008745 threonine dehydratase; Validated; Region: PRK08639 880591008746 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 880591008747 tetramer interface [polypeptide binding]; other site 880591008748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591008749 catalytic residue [active] 880591008750 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 880591008751 putative Ile/Val binding site [chemical binding]; other site 880591008752 argininosuccinate synthase; Provisional; Region: PRK13820 880591008753 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 880591008754 ANP binding site [chemical binding]; other site 880591008755 Substrate Binding Site II [chemical binding]; other site 880591008756 Substrate Binding Site I [chemical binding]; other site 880591008757 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 880591008758 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 880591008759 homodimer interface [polypeptide binding]; other site 880591008760 substrate-cofactor binding pocket; other site 880591008761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591008762 catalytic residue [active] 880591008763 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 880591008764 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880591008765 substrate binding site [chemical binding]; other site 880591008766 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880591008767 ATP binding site [chemical binding]; other site 880591008768 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 880591008769 MutS domain I; Region: MutS_I; pfam01624 880591008770 MutS domain II; Region: MutS_II; pfam05188 880591008771 MutS domain III; Region: MutS_III; pfam05192 880591008772 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 880591008773 Walker A/P-loop; other site 880591008774 ATP binding site [chemical binding]; other site 880591008775 Q-loop/lid; other site 880591008776 ABC transporter signature motif; other site 880591008777 Walker B; other site 880591008778 D-loop; other site 880591008779 H-loop/switch region; other site 880591008780 GrpE; Region: GrpE; pfam01025 880591008781 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 880591008782 dimer interface [polypeptide binding]; other site 880591008783 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 880591008784 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 880591008785 ribonuclease PH; Reviewed; Region: rph; PRK00173 880591008786 Ribonuclease PH; Region: RNase_PH_bact; cd11362 880591008787 hexamer interface [polypeptide binding]; other site 880591008788 active site 880591008789 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 880591008790 active site 880591008791 dimerization interface [polypeptide binding]; other site 880591008792 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 880591008793 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 880591008794 FeS/SAM binding site; other site 880591008795 HemN C-terminal domain; Region: HemN_C; pfam06969 880591008796 ParB-like nuclease domain; Region: ParB; smart00470 880591008797 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 880591008798 KorB domain; Region: KorB; pfam08535 880591008799 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 880591008800 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 880591008801 Magnesium ion binding site [ion binding]; other site 880591008802 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 880591008803 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 880591008804 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 880591008805 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 880591008806 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 880591008807 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 880591008808 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 880591008809 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 880591008810 trmE is a tRNA modification GTPase; Region: trmE; cd04164 880591008811 G1 box; other site 880591008812 GTP/Mg2+ binding site [chemical binding]; other site 880591008813 Switch I region; other site 880591008814 G2 box; other site 880591008815 Switch II region; other site 880591008816 G3 box; other site 880591008817 G5 box; other site 880591008818 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 880591008819 transcription termination factor Rho; Provisional; Region: rho; PRK09376 880591008820 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 880591008821 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 880591008822 RNA binding site [nucleotide binding]; other site 880591008823 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 880591008824 multimer interface [polypeptide binding]; other site 880591008825 Walker A motif; other site 880591008826 ATP binding site [chemical binding]; other site 880591008827 Walker B motif; other site 880591008828 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 880591008829 active site 880591008830 dimer interface [polypeptide binding]; other site 880591008831 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 880591008832 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 880591008833 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 880591008834 shikimate binding site; other site 880591008835 NAD(P) binding site [chemical binding]; other site 880591008836 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 880591008837 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 880591008838 CoA-binding site [chemical binding]; other site 880591008839 ATP-binding [chemical binding]; other site 880591008840 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 880591008841 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 880591008842 active site 880591008843 catalytic site [active] 880591008844 substrate binding site [chemical binding]; other site 880591008845 Preprotein translocase subunit SecB; Region: SecB; pfam02556 880591008846 SecA binding site; other site 880591008847 Preprotein binding site; other site 880591008848 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 880591008849 Tim44-like domain; Region: Tim44; pfam04280 880591008850 Smr domain; Region: Smr; pfam01713 880591008851 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 880591008852 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 880591008853 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 880591008854 Walker A motif; other site 880591008855 ATP binding site [chemical binding]; other site 880591008856 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 880591008857 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 880591008858 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 880591008859 active site 880591008860 HslU subunit interaction site [polypeptide binding]; other site 880591008861 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 880591008862 active site 880591008863 tetramer interface [polypeptide binding]; other site 880591008864 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 880591008865 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 880591008866 catalytic residues [active] 880591008867 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 880591008868 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 880591008869 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 880591008870 PAS domain; Region: PAS; smart00091 880591008871 PAS fold; Region: PAS_7; pfam12860 880591008872 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880591008873 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 880591008874 dimer interface [polypeptide binding]; other site 880591008875 phosphorylation site [posttranslational modification] 880591008876 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 880591008877 ATP binding site [chemical binding]; other site 880591008878 Mg2+ binding site [ion binding]; other site 880591008879 G-X-G motif; other site 880591008880 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 880591008881 Response regulator receiver domain; Region: Response_reg; pfam00072 880591008882 active site 880591008883 phosphorylation site [posttranslational modification] 880591008884 intermolecular recognition site; other site 880591008885 dimerization interface [polypeptide binding]; other site 880591008886 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 880591008887 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 880591008888 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 880591008889 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 880591008890 homotetramer interface [polypeptide binding]; other site 880591008891 ligand binding site [chemical binding]; other site 880591008892 catalytic site [active] 880591008893 NAD binding site [chemical binding]; other site 880591008894 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 880591008895 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 880591008896 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 880591008897 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 880591008898 branched-chain amino acid aminotransferase; Validated; Region: PRK07544 880591008899 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 880591008900 homodimer interface [polypeptide binding]; other site 880591008901 substrate-cofactor binding pocket; other site 880591008902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591008903 catalytic residue [active] 880591008904 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 880591008905 MarR family; Region: MarR_2; pfam12802 880591008906 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880591008907 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 880591008908 active site 880591008909 phosphorylation site [posttranslational modification] 880591008910 intermolecular recognition site; other site 880591008911 dimerization interface [polypeptide binding]; other site 880591008912 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 880591008913 DNA binding site [nucleotide binding] 880591008914 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880591008915 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 880591008916 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 880591008917 Amidase; Region: Amidase; cl11426 880591008918 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 880591008919 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 880591008920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 880591008921 homodimer interface [polypeptide binding]; other site 880591008922 catalytic residue [active] 880591008923 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 880591008924 Predicted permeases [General function prediction only]; Region: COG0730 880591008925 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 880591008926 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 880591008927 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 880591008928 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 880591008929 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 880591008930 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 880591008931 N-acetyl-D-glucosamine binding site [chemical binding]; other site 880591008932 catalytic residue [active] 880591008933 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 880591008934 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 880591008935 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 880591008936 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 880591008937 putative NAD(P) binding site [chemical binding]; other site 880591008938 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880591008939 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 880591008940 Walker A/P-loop; other site 880591008941 ATP binding site [chemical binding]; other site 880591008942 Q-loop/lid; other site 880591008943 ABC transporter signature motif; other site 880591008944 Walker B; other site 880591008945 D-loop; other site 880591008946 H-loop/switch region; other site 880591008947 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 880591008948 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 880591008949 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 880591008950 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 880591008951 dimer interface [polypeptide binding]; other site 880591008952 conserved gate region; other site 880591008953 putative PBP binding loops; other site 880591008954 ABC-ATPase subunit interface; other site 880591008955 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 880591008956 dimer interface [polypeptide binding]; other site 880591008957 conserved gate region; other site 880591008958 putative PBP binding loops; other site 880591008959 ABC-ATPase subunit interface; other site 880591008960 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 880591008961 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880591008962 active site 880591008963 metal binding site [ion binding]; metal-binding site 880591008964 hexamer interface [polypeptide binding]; other site 880591008965 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591008966 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591008967 DNA binding site [nucleotide binding] 880591008968 domain linker motif; other site 880591008969 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 880591008970 putative dimerization interface [polypeptide binding]; other site 880591008971 putative ligand binding site [chemical binding]; other site 880591008972 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 880591008973 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 880591008974 catalytic residues [active] 880591008975 Protein of unknown function (DUF721); Region: DUF721; pfam05258 880591008976 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 880591008977 RNA/DNA hybrid binding site [nucleotide binding]; other site 880591008978 active site 880591008979 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 880591008980 DNA methylase; Region: N6_N4_Mtase; pfam01555 880591008981 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 880591008982 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 880591008983 potential frameshift: common BLAST hit: gi|56698267|ref|YP_168640.1| 3-deoxy-D-manno-octulosonic-acid transferase 880591008984 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 880591008985 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 880591008986 peptidase PmbA; Provisional; Region: PRK11040 880591008987 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 880591008988 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 880591008989 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 880591008990 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 880591008991 Lipopolysaccharide-assembly; Region: LptE; pfam04390 880591008992 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 880591008993 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 880591008994 HIGH motif; other site 880591008995 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 880591008996 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 880591008997 active site 880591008998 KMSKS motif; other site 880591008999 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 880591009000 tRNA binding surface [nucleotide binding]; other site 880591009001 anticodon binding site; other site 880591009002 Gram-negative porin; Region: Porin_4; pfam13609 880591009003 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 880591009004 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 880591009005 catalytic residue [active] 880591009006 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 880591009007 putative catalytic site [active] 880591009008 putative metal binding site [ion binding]; other site 880591009009 putative phosphate binding site [ion binding]; other site 880591009010 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 880591009011 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 880591009012 active site 880591009013 phosphorylation site [posttranslational modification] 880591009014 intermolecular recognition site; other site 880591009015 dimerization interface [polypeptide binding]; other site 880591009016 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 880591009017 DNA binding site [nucleotide binding] 880591009018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 880591009019 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 880591009020 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 880591009021 catalytic residues [active] 880591009022 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 880591009023 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 880591009024 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 880591009025 [2Fe-2S] cluster binding site [ion binding]; other site 880591009026 potential frameshift: common BLAST hit: gi|221640892|ref|YP_002527154.1| Cytochrome b 880591009027 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 880591009028 interchain domain interface [polypeptide binding]; other site 880591009029 intrachain domain interface; other site 880591009030 heme bH binding site [chemical binding]; other site 880591009031 Qi binding site; other site 880591009032 heme bL binding site [chemical binding]; other site 880591009033 Qo binding site; other site 880591009034 intrachain domain interface; other site 880591009035 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 880591009036 Qo binding site; other site 880591009037 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 880591009038 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 880591009039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591009040 Walker A/P-loop; other site 880591009041 ATP binding site [chemical binding]; other site 880591009042 Q-loop/lid; other site 880591009043 ABC transporter signature motif; other site 880591009044 Walker B; other site 880591009045 D-loop; other site 880591009046 H-loop/switch region; other site 880591009047 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 880591009048 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 880591009049 dimer interface [polypeptide binding]; other site 880591009050 conserved gate region; other site 880591009051 putative PBP binding loops; other site 880591009052 ABC-ATPase subunit interface; other site 880591009053 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 880591009054 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 880591009055 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 880591009056 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 880591009057 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 880591009058 Tetramer interface [polypeptide binding]; other site 880591009059 active site 880591009060 FMN-binding site [chemical binding]; other site 880591009061 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 880591009062 IHF - DNA interface [nucleotide binding]; other site 880591009063 IHF dimer interface [polypeptide binding]; other site 880591009064 AMP nucleosidase; Provisional; Region: PRK08292 880591009065 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 880591009066 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 880591009067 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 880591009068 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 880591009069 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 880591009070 active site 880591009071 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 880591009072 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 880591009073 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 880591009074 active site 880591009075 chaperone protein DnaJ; Provisional; Region: PRK10767 880591009076 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 880591009077 HSP70 interaction site [polypeptide binding]; other site 880591009078 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 880591009079 Zn binding sites [ion binding]; other site 880591009080 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 880591009081 dimer interface [polypeptide binding]; other site 880591009082 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 880591009083 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 880591009084 nucleotide binding site [chemical binding]; other site 880591009085 dihydrodipicolinate reductase; Provisional; Region: PRK00048 880591009086 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 880591009087 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 880591009088 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 880591009089 Predicted periplasmic protein [Function unknown]; Region: COG3698 880591009090 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 880591009091 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 880591009092 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 880591009093 RNA binding site [nucleotide binding]; other site 880591009094 active site 880591009095 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 880591009096 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 880591009097 16S/18S rRNA binding site [nucleotide binding]; other site 880591009098 S13e-L30e interaction site [polypeptide binding]; other site 880591009099 25S rRNA binding site [nucleotide binding]; other site 880591009100 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 880591009101 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 880591009102 RNase E interface [polypeptide binding]; other site 880591009103 trimer interface [polypeptide binding]; other site 880591009104 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 880591009105 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 880591009106 RNase E interface [polypeptide binding]; other site 880591009107 trimer interface [polypeptide binding]; other site 880591009108 active site 880591009109 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 880591009110 putative nucleic acid binding region [nucleotide binding]; other site 880591009111 G-X-X-G motif; other site 880591009112 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 880591009113 RNA binding site [nucleotide binding]; other site 880591009114 domain interface; other site 880591009115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 880591009116 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 880591009117 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 880591009118 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 880591009119 Mg2+ binding site [ion binding]; other site 880591009120 G-X-G motif; other site 880591009121 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 880591009122 anchoring element; other site 880591009123 dimer interface [polypeptide binding]; other site 880591009124 ATP binding site [chemical binding]; other site 880591009125 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 880591009126 active site 880591009127 putative metal-binding site [ion binding]; other site 880591009128 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 880591009129 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 880591009130 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 880591009131 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 880591009132 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 880591009133 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 880591009134 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 880591009135 active site residue [active] 880591009136 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 880591009137 Isochorismatase family; Region: Isochorismatase; pfam00857 880591009138 catalytic triad [active] 880591009139 metal binding site [ion binding]; metal-binding site 880591009140 conserved cis-peptide bond; other site 880591009141 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 880591009142 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 880591009143 active site 880591009144 hypothetical protein; Provisional; Region: PRK09256 880591009145 hypothetical protein; Provisional; Region: PRK09256 880591009146 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 880591009147 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 880591009148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 880591009149 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 880591009150 YGGT family; Region: YGGT; pfam02325 880591009151 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 880591009152 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 880591009153 ATP binding site [chemical binding]; other site 880591009154 putative Mg++ binding site [ion binding]; other site 880591009155 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 880591009156 nucleotide binding region [chemical binding]; other site 880591009157 ATP-binding site [chemical binding]; other site 880591009158 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 880591009159 HRDC domain; Region: HRDC; pfam00570 880591009160 HRDC domain; Region: HRDC; cl02578 880591009161 Protein of unknown function (DUF328); Region: DUF328; pfam03883 880591009162 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 880591009163 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 880591009164 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 880591009165 Walker A/P-loop; other site 880591009166 ATP binding site [chemical binding]; other site 880591009167 Q-loop/lid; other site 880591009168 ABC transporter signature motif; other site 880591009169 Walker B; other site 880591009170 D-loop; other site 880591009171 H-loop/switch region; other site 880591009172 hypothetical protein; Provisional; Region: PRK10621 880591009173 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 880591009174 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 880591009175 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 880591009176 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 880591009177 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 880591009178 putative ligand binding site [chemical binding]; other site 880591009179 NAD binding site [chemical binding]; other site 880591009180 catalytic site [active] 880591009181 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 880591009182 guanine deaminase; Region: guan_deamin; TIGR02967 880591009183 active site 880591009184 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 880591009185 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 880591009186 NADP binding site [chemical binding]; other site 880591009187 Predicted transcriptional regulators [Transcription]; Region: COG1733 880591009188 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 880591009189 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 880591009190 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 880591009191 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 880591009192 HlyD family secretion protein; Region: HlyD_3; pfam13437 880591009193 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591009194 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591009195 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591009196 Uncharacterized conserved protein [Function unknown]; Region: COG3535 880591009197 AroM protein; Region: AroM; cl17601 880591009198 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880591009199 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 880591009200 DNA binding residues [nucleotide binding] 880591009201 dimerization interface [polypeptide binding]; other site 880591009202 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 880591009203 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 880591009204 putative metal binding site [ion binding]; other site 880591009205 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 880591009206 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 880591009207 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591009208 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591009209 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591009210 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 880591009211 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 880591009212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 880591009213 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 880591009214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591009215 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 880591009216 dimerization interface [polypeptide binding]; other site 880591009217 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591009218 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591009219 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 880591009220 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 880591009221 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 880591009222 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 880591009223 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591009224 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 880591009225 dimer interface [polypeptide binding]; other site 880591009226 conserved gate region; other site 880591009227 putative PBP binding loops; other site 880591009228 ABC-ATPase subunit interface; other site 880591009229 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591009230 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 880591009231 dimer interface [polypeptide binding]; other site 880591009232 conserved gate region; other site 880591009233 putative PBP binding loops; other site 880591009234 ABC-ATPase subunit interface; other site 880591009235 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880591009236 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009237 Walker A/P-loop; other site 880591009238 ATP binding site [chemical binding]; other site 880591009239 Q-loop/lid; other site 880591009240 ABC transporter signature motif; other site 880591009241 Walker B; other site 880591009242 D-loop; other site 880591009243 H-loop/switch region; other site 880591009244 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591009245 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591009246 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009247 Walker A/P-loop; other site 880591009248 ATP binding site [chemical binding]; other site 880591009249 Q-loop/lid; other site 880591009250 ABC transporter signature motif; other site 880591009251 Walker B; other site 880591009252 D-loop; other site 880591009253 H-loop/switch region; other site 880591009254 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591009255 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 880591009256 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 880591009257 active site 880591009258 dimerization interface [polypeptide binding]; other site 880591009259 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 880591009260 active site 880591009261 catalytic site [active] 880591009262 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880591009263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591009264 Walker A/P-loop; other site 880591009265 ATP binding site [chemical binding]; other site 880591009266 Q-loop/lid; other site 880591009267 ABC transporter signature motif; other site 880591009268 Walker B; other site 880591009269 D-loop; other site 880591009270 H-loop/switch region; other site 880591009271 TOBE domain; Region: TOBE_2; pfam08402 880591009272 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 880591009273 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 880591009274 dimer interface [polypeptide binding]; other site 880591009275 conserved gate region; other site 880591009276 putative PBP binding loops; other site 880591009277 ABC-ATPase subunit interface; other site 880591009278 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 880591009279 hypothetical protein; Provisional; Region: PRK11622 880591009280 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591009281 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591009282 DNA binding site [nucleotide binding] 880591009283 domain linker motif; other site 880591009284 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880591009285 Trehalose utilisation; Region: ThuA; pfam06283 880591009286 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 880591009287 membrane-bound complex binding site; other site 880591009288 hinge residues; other site 880591009289 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 880591009290 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 880591009291 Trp docking motif [polypeptide binding]; other site 880591009292 active site 880591009293 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 880591009294 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880591009295 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 880591009296 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 880591009297 TM-ABC transporter signature motif; other site 880591009298 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 880591009299 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 880591009300 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 880591009301 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 880591009302 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 880591009303 Walker A/P-loop; other site 880591009304 ATP binding site [chemical binding]; other site 880591009305 Q-loop/lid; other site 880591009306 ABC transporter signature motif; other site 880591009307 Walker B; other site 880591009308 D-loop; other site 880591009309 H-loop/switch region; other site 880591009310 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 880591009311 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 880591009312 Walker A/P-loop; other site 880591009313 ATP binding site [chemical binding]; other site 880591009314 Q-loop/lid; other site 880591009315 ABC transporter signature motif; other site 880591009316 Walker B; other site 880591009317 D-loop; other site 880591009318 H-loop/switch region; other site 880591009319 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 880591009320 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 880591009321 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 880591009322 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 880591009323 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 880591009324 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 880591009325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591009326 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 880591009327 dimerization interface [polypeptide binding]; other site 880591009328 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 880591009329 tetramer interface [polypeptide binding]; other site 880591009330 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 880591009331 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 880591009332 heterodimer interface [polypeptide binding]; other site 880591009333 active site 880591009334 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 880591009335 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 880591009336 active site 880591009337 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 880591009338 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 880591009339 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 880591009340 dimer interface [polypeptide binding]; other site 880591009341 active site 880591009342 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 880591009343 Coenzyme A transferase; Region: CoA_trans; cl17247 880591009344 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 880591009345 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 880591009346 Bacterial transcriptional regulator; Region: IclR; pfam01614 880591009347 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 880591009348 nucleotide binding site [chemical binding]; other site 880591009349 putative NEF/HSP70 interaction site [polypeptide binding]; other site 880591009350 SBD interface [polypeptide binding]; other site 880591009351 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 880591009352 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 880591009353 NADP binding site [chemical binding]; other site 880591009354 dimer interface [polypeptide binding]; other site 880591009355 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 880591009356 classical (c) SDRs; Region: SDR_c; cd05233 880591009357 NAD(P) binding site [chemical binding]; other site 880591009358 active site 880591009359 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 880591009360 Transcriptional regulators [Transcription]; Region: MarR; COG1846 880591009361 MarR family; Region: MarR_2; pfam12802 880591009362 monocarboxylate transporter 1; Region: 2A0113; TIGR00892 880591009363 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 880591009364 putative active site [active] 880591009365 catalytic site [active] 880591009366 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 880591009367 PLD-like domain; Region: PLDc_2; pfam13091 880591009368 putative active site [active] 880591009369 catalytic site [active] 880591009370 ParB-like nuclease domain; Region: ParBc; pfam02195 880591009371 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 880591009372 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 880591009373 P-loop; other site 880591009374 Magnesium ion binding site [ion binding]; other site 880591009375 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 880591009376 Magnesium ion binding site [ion binding]; other site 880591009377 DnaA N-terminal domain; Region: DnaA_N; pfam11638 880591009378 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591009379 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591009380 DNA binding site [nucleotide binding] 880591009381 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880591009382 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 880591009383 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 880591009384 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 880591009385 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 880591009386 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 880591009387 Cytochrome c; Region: Cytochrom_C; pfam00034 880591009388 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880591009389 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880591009390 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 880591009391 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 880591009392 Transcriptional regulator [Transcription]; Region: LysR; COG0583 880591009393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591009394 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 880591009395 dimerization interface [polypeptide binding]; other site 880591009396 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591009397 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 880591009398 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591009399 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 880591009400 ABC-ATPase subunit interface; other site 880591009401 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 880591009402 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 880591009403 dimer interface [polypeptide binding]; other site 880591009404 conserved gate region; other site 880591009405 putative PBP binding loops; other site 880591009406 ABC-ATPase subunit interface; other site 880591009407 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591009408 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009409 Walker A/P-loop; other site 880591009410 ATP binding site [chemical binding]; other site 880591009411 Q-loop/lid; other site 880591009412 ABC transporter signature motif; other site 880591009413 Walker B; other site 880591009414 D-loop; other site 880591009415 H-loop/switch region; other site 880591009416 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009417 Walker A/P-loop; other site 880591009418 ATP binding site [chemical binding]; other site 880591009419 Q-loop/lid; other site 880591009420 ABC transporter signature motif; other site 880591009421 Walker B; other site 880591009422 D-loop; other site 880591009423 H-loop/switch region; other site 880591009424 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591009425 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 880591009426 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 880591009427 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 880591009428 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 880591009429 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009430 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591009431 Q-loop/lid; other site 880591009432 ABC transporter signature motif; other site 880591009433 Walker B; other site 880591009434 D-loop; other site 880591009435 H-loop/switch region; other site 880591009436 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591009437 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591009438 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009439 Walker A/P-loop; other site 880591009440 ATP binding site [chemical binding]; other site 880591009441 Q-loop/lid; other site 880591009442 ABC transporter signature motif; other site 880591009443 Walker B; other site 880591009444 D-loop; other site 880591009445 H-loop/switch region; other site 880591009446 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591009447 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591009448 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 880591009449 dimer interface [polypeptide binding]; other site 880591009450 conserved gate region; other site 880591009451 putative PBP binding loops; other site 880591009452 ABC-ATPase subunit interface; other site 880591009453 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591009454 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 880591009455 dimer interface [polypeptide binding]; other site 880591009456 conserved gate region; other site 880591009457 putative PBP binding loops; other site 880591009458 ABC-ATPase subunit interface; other site 880591009459 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 880591009460 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591009461 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 880591009462 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 880591009463 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 880591009464 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 880591009465 active site 880591009466 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 880591009467 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 880591009468 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591009469 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591009470 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591009471 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 880591009472 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 880591009473 non-specific DNA binding site [nucleotide binding]; other site 880591009474 salt bridge; other site 880591009475 sequence-specific DNA binding site [nucleotide binding]; other site 880591009476 Cupin domain; Region: Cupin_2; pfam07883 880591009477 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591009478 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009479 Walker A/P-loop; other site 880591009480 ATP binding site [chemical binding]; other site 880591009481 Q-loop/lid; other site 880591009482 ABC transporter signature motif; other site 880591009483 Walker B; other site 880591009484 D-loop; other site 880591009485 H-loop/switch region; other site 880591009486 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591009487 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591009488 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009489 Walker A/P-loop; other site 880591009490 ATP binding site [chemical binding]; other site 880591009491 Q-loop/lid; other site 880591009492 ABC transporter signature motif; other site 880591009493 Walker B; other site 880591009494 D-loop; other site 880591009495 H-loop/switch region; other site 880591009496 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591009497 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591009498 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 880591009499 dimer interface [polypeptide binding]; other site 880591009500 conserved gate region; other site 880591009501 putative PBP binding loops; other site 880591009502 ABC-ATPase subunit interface; other site 880591009503 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591009504 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 880591009505 dimer interface [polypeptide binding]; other site 880591009506 conserved gate region; other site 880591009507 putative PBP binding loops; other site 880591009508 ABC-ATPase subunit interface; other site 880591009509 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 880591009510 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591009511 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 880591009512 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 880591009513 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591009514 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591009515 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591009516 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 880591009517 Transcriptional regulator [Transcription]; Region: IclR; COG1414 880591009518 Bacterial transcriptional regulator; Region: IclR; pfam01614 880591009519 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 880591009520 High-affinity nickel-transport protein; Region: NicO; cl00964 880591009521 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880591009522 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 880591009523 metal binding site [ion binding]; metal-binding site 880591009524 putative dimer interface [polypeptide binding]; other site 880591009525 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 880591009526 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591009527 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591009528 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591009529 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 880591009530 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880591009531 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 880591009532 non-specific DNA binding site [nucleotide binding]; other site 880591009533 salt bridge; other site 880591009534 sequence-specific DNA binding site [nucleotide binding]; other site 880591009535 Cupin domain; Region: Cupin_2; pfam07883 880591009536 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 880591009537 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 880591009538 Walker A/P-loop; other site 880591009539 ATP binding site [chemical binding]; other site 880591009540 Q-loop/lid; other site 880591009541 ABC transporter signature motif; other site 880591009542 Walker B; other site 880591009543 D-loop; other site 880591009544 H-loop/switch region; other site 880591009545 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 880591009546 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 880591009547 dimer interface [polypeptide binding]; other site 880591009548 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 880591009549 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 880591009550 ABC-ATPase subunit interface; other site 880591009551 dimer interface [polypeptide binding]; other site 880591009552 putative PBP binding regions; other site 880591009553 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 880591009554 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 880591009555 siderophore binding site; other site 880591009556 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 880591009557 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 880591009558 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 880591009559 dimer interface [polypeptide binding]; other site 880591009560 phosphorylation site [posttranslational modification] 880591009561 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 880591009562 ATP binding site [chemical binding]; other site 880591009563 Mg2+ binding site [ion binding]; other site 880591009564 G-X-G motif; other site 880591009565 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 880591009566 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 880591009567 active site 880591009568 phosphorylation site [posttranslational modification] 880591009569 intermolecular recognition site; other site 880591009570 dimerization interface [polypeptide binding]; other site 880591009571 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 880591009572 DNA binding site [nucleotide binding] 880591009573 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 880591009574 Predicted amidohydrolase [General function prediction only]; Region: COG0388 880591009575 active site 880591009576 catalytic triad [active] 880591009577 dimer interface [polypeptide binding]; other site 880591009578 dihydropyrimidinase; Provisional; Region: PRK13404 880591009579 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 880591009580 tetramer interface [polypeptide binding]; other site 880591009581 active site 880591009582 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 880591009583 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 880591009584 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 880591009585 inhibitor site; inhibition site 880591009586 active site 880591009587 dimer interface [polypeptide binding]; other site 880591009588 catalytic residue [active] 880591009589 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 880591009590 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 880591009591 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 880591009592 Transcriptional regulators [Transcription]; Region: GntR; COG1802 880591009593 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591009594 DNA-binding site [nucleotide binding]; DNA binding site 880591009595 FCD domain; Region: FCD; pfam07729 880591009596 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 880591009597 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 880591009598 active site residue [active] 880591009599 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 880591009600 active site residue [active] 880591009601 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 880591009602 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 880591009603 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 880591009604 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 880591009605 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 880591009606 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 880591009607 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009608 Walker A/P-loop; other site 880591009609 ATP binding site [chemical binding]; other site 880591009610 Q-loop/lid; other site 880591009611 ABC transporter signature motif; other site 880591009612 Walker B; other site 880591009613 D-loop; other site 880591009614 H-loop/switch region; other site 880591009615 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591009616 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009617 Walker A/P-loop; other site 880591009618 ATP binding site [chemical binding]; other site 880591009619 Q-loop/lid; other site 880591009620 ABC transporter signature motif; other site 880591009621 Walker B; other site 880591009622 D-loop; other site 880591009623 H-loop/switch region; other site 880591009624 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591009625 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 880591009626 dimer interface [polypeptide binding]; other site 880591009627 ABC-ATPase subunit interface; other site 880591009628 putative PBP binding loops; other site 880591009629 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591009630 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 880591009631 dimer interface [polypeptide binding]; other site 880591009632 conserved gate region; other site 880591009633 putative PBP binding loops; other site 880591009634 ABC-ATPase subunit interface; other site 880591009635 potential frameshift: common BLAST hit: gi|226361352|ref|YP_002779130.1| putative ABC transporter substrate-binding protein 880591009636 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591009637 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591009638 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591009639 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 880591009640 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 880591009641 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 880591009642 non-specific DNA binding site [nucleotide binding]; other site 880591009643 salt bridge; other site 880591009644 sequence-specific DNA binding site [nucleotide binding]; other site 880591009645 HipA N-terminal domain; Region: Couple_hipA; pfam13657 880591009646 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 880591009647 HipA-like N-terminal domain; Region: HipA_N; pfam07805 880591009648 HipA-like C-terminal domain; Region: HipA_C; pfam07804 880591009649 response regulator; Provisional; Region: PRK13435 880591009650 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 880591009651 active site 880591009652 phosphorylation site [posttranslational modification] 880591009653 intermolecular recognition site; other site 880591009654 dimerization interface [polypeptide binding]; other site 880591009655 Response regulator receiver domain; Region: Response_reg; pfam00072 880591009656 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 880591009657 active site 880591009658 phosphorylation site [posttranslational modification] 880591009659 intermolecular recognition site; other site 880591009660 dimerization interface [polypeptide binding]; other site 880591009661 PAS domain; Region: PAS; smart00091 880591009662 PAS domain; Region: PAS_9; pfam13426 880591009663 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 880591009664 HWE histidine kinase; Region: HWE_HK; pfam07536 880591009665 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 880591009666 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 880591009667 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 880591009668 dimer interface [polypeptide binding]; other site 880591009669 phosphorylation site [posttranslational modification] 880591009670 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 880591009671 ATP binding site [chemical binding]; other site 880591009672 Mg2+ binding site [ion binding]; other site 880591009673 G-X-G motif; other site 880591009674 Response regulator receiver domain; Region: Response_reg; pfam00072 880591009675 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 880591009676 active site 880591009677 phosphorylation site [posttranslational modification] 880591009678 intermolecular recognition site; other site 880591009679 dimerization interface [polypeptide binding]; other site 880591009680 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 880591009681 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 880591009682 active site 880591009683 phosphorylation site [posttranslational modification] 880591009684 intermolecular recognition site; other site 880591009685 Response regulator receiver domain; Region: Response_reg; pfam00072 880591009686 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 880591009687 active site 880591009688 phosphorylation site [posttranslational modification] 880591009689 intermolecular recognition site; other site 880591009690 dimerization interface [polypeptide binding]; other site 880591009691 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 880591009692 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 880591009693 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 880591009694 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 880591009695 active site 880591009696 metal binding site [ion binding]; metal-binding site 880591009697 ATP-dependent protease La; Region: lon; TIGR00763 880591009698 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 880591009699 putative active site [active] 880591009700 putative metal binding site [ion binding]; other site 880591009701 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 880591009702 HsdM N-terminal domain; Region: HsdM_N; pfam12161 880591009703 Methyltransferase domain; Region: Methyltransf_26; pfam13659 880591009704 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 880591009705 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 880591009706 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 880591009707 GIY-YIG motif/motif A; other site 880591009708 putative active site [active] 880591009709 putative metal binding site [ion binding]; other site 880591009710 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 880591009711 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 880591009712 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 880591009713 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 880591009714 ATP binding site [chemical binding]; other site 880591009715 putative Mg++ binding site [ion binding]; other site 880591009716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 880591009717 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591009718 Walker A/P-loop; other site 880591009719 ATP binding site [chemical binding]; other site 880591009720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591009721 ABC transporter signature motif; other site 880591009722 Walker B; other site 880591009723 D-loop; other site 880591009724 H-loop/switch region; other site 880591009725 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 880591009726 Integrase core domain; Region: rve; pfam00665 880591009727 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 880591009728 AAA domain; Region: AAA_22; pfam13401 880591009729 TniQ; Region: TniQ; pfam06527 880591009730 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 880591009731 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 880591009732 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 880591009733 substrate binding site [chemical binding]; other site 880591009734 ATP binding site [chemical binding]; other site 880591009735 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 880591009736 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 880591009737 putative ligand binding site [chemical binding]; other site 880591009738 NAD binding site [chemical binding]; other site 880591009739 catalytic site [active] 880591009740 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 880591009741 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 880591009742 Walker A/P-loop; other site 880591009743 ATP binding site [chemical binding]; other site 880591009744 Q-loop/lid; other site 880591009745 ABC transporter signature motif; other site 880591009746 Walker B; other site 880591009747 D-loop; other site 880591009748 H-loop/switch region; other site 880591009749 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 880591009750 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 880591009751 dimer interface [polypeptide binding]; other site 880591009752 conserved gate region; other site 880591009753 putative PBP binding loops; other site 880591009754 ABC-ATPase subunit interface; other site 880591009755 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 880591009756 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 880591009757 dimer interface [polypeptide binding]; other site 880591009758 conserved gate region; other site 880591009759 putative PBP binding loops; other site 880591009760 ABC-ATPase subunit interface; other site 880591009761 Transcriptional regulators [Transcription]; Region: PurR; COG1609 880591009762 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 880591009763 DNA binding site [nucleotide binding] 880591009764 domain linker motif; other site 880591009765 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 880591009766 Uncharacterized protein family (UPF0160); Region: UPF0160; pfam03690 880591009767 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 880591009768 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 880591009769 H-NS histone family; Region: Histone_HNS; pfam00816 880591009770 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 880591009771 MgtC family; Region: MgtC; pfam02308 880591009772 RNA polymerase sigma factor; Provisional; Region: PRK12546 880591009773 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 880591009774 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 880591009775 DNA binding residues [nucleotide binding] 880591009776 two-component response regulator; Provisional; Region: PRK09191 880591009777 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 880591009778 active site 880591009779 phosphorylation site [posttranslational modification] 880591009780 intermolecular recognition site; other site 880591009781 dimerization interface [polypeptide binding]; other site 880591009782 PRC-barrel domain; Region: PRC; pfam05239 880591009783 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 880591009784 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 880591009785 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 880591009786 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 880591009787 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 880591009788 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 880591009789 ATP binding site [chemical binding]; other site 880591009790 Mg++ binding site [ion binding]; other site 880591009791 motif III; other site 880591009792 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 880591009793 nucleotide binding region [chemical binding]; other site 880591009794 ATP-binding site [chemical binding]; other site 880591009795 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 880591009796 RNA binding site [nucleotide binding]; other site 880591009797 malic enzyme; Reviewed; Region: PRK12862 880591009798 Malic enzyme, N-terminal domain; Region: malic; pfam00390 880591009799 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 880591009800 putative NAD(P) binding site [chemical binding]; other site 880591009801 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 880591009802 D-aminopeptidase; Reviewed; Region: PRK13128 880591009803 Beta-lactamase; Region: Beta-lactamase; pfam00144 880591009804 cell density-dependent motility repressor; Provisional; Region: PRK10082 880591009805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 880591009806 LysR substrate binding domain; Region: LysR_substrate; pfam03466 880591009807 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 880591009808 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 880591009809 putative metal binding site [ion binding]; other site 880591009810 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591009811 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 880591009812 dimer interface [polypeptide binding]; other site 880591009813 conserved gate region; other site 880591009814 putative PBP binding loops; other site 880591009815 ABC-ATPase subunit interface; other site 880591009816 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591009817 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 880591009818 dimer interface [polypeptide binding]; other site 880591009819 conserved gate region; other site 880591009820 ABC-ATPase subunit interface; other site 880591009821 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591009822 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009823 Walker A/P-loop; other site 880591009824 ATP binding site [chemical binding]; other site 880591009825 Q-loop/lid; other site 880591009826 ABC transporter signature motif; other site 880591009827 Walker B; other site 880591009828 D-loop; other site 880591009829 H-loop/switch region; other site 880591009830 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591009831 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591009832 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009833 Walker A/P-loop; other site 880591009834 ATP binding site [chemical binding]; other site 880591009835 Q-loop/lid; other site 880591009836 ABC transporter signature motif; other site 880591009837 Walker B; other site 880591009838 D-loop; other site 880591009839 H-loop/switch region; other site 880591009840 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 880591009841 Beta-lactamase; Region: Beta-lactamase; pfam00144 880591009842 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 880591009843 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 880591009844 DNA binding residues [nucleotide binding] 880591009845 dimerization interface [polypeptide binding]; other site 880591009846 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 880591009847 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 880591009848 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 880591009849 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 880591009850 dimer interface [polypeptide binding]; other site 880591009851 conserved gate region; other site 880591009852 putative PBP binding loops; other site 880591009853 ABC-ATPase subunit interface; other site 880591009854 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 880591009855 dimer interface [polypeptide binding]; other site 880591009856 conserved gate region; other site 880591009857 putative PBP binding loops; other site 880591009858 ABC-ATPase subunit interface; other site 880591009859 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 880591009860 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 880591009861 Walker A/P-loop; other site 880591009862 ATP binding site [chemical binding]; other site 880591009863 Q-loop/lid; other site 880591009864 ABC transporter signature motif; other site 880591009865 Walker B; other site 880591009866 D-loop; other site 880591009867 H-loop/switch region; other site 880591009868 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 880591009869 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 880591009870 FeS/SAM binding site; other site 880591009871 Domain of unknown function (DUF4130; Region: DUF4130; pfam13566 880591009872 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 880591009873 Fe-S cluster binding site [ion binding]; other site 880591009874 active site 880591009875 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 880591009876 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 880591009877 NAD(P) binding site [chemical binding]; other site 880591009878 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 880591009879 Peptidase family M28; Region: Peptidase_M28; pfam04389 880591009880 metal binding site [ion binding]; metal-binding site 880591009881 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 880591009882 Transcriptional regulator [Transcription]; Region: IclR; COG1414 880591009883 Bacterial transcriptional regulator; Region: IclR; pfam01614 880591009884 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 880591009885 hypothetical protein; Provisional; Region: PRK07079 880591009886 metal binding site [ion binding]; metal-binding site 880591009887 putative dimer interface [polypeptide binding]; other site 880591009888 hypothetical protein; Provisional; Region: PRK07338 880591009889 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 880591009890 metal binding site [ion binding]; metal-binding site 880591009891 dimer interface [polypeptide binding]; other site 880591009892 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591009893 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591009894 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591009895 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591009896 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 880591009897 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 880591009898 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 880591009899 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 880591009900 Peptidase family M28; Region: Peptidase_M28; pfam04389 880591009901 metal binding site [ion binding]; metal-binding site 880591009902 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591009903 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591009904 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591009905 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 880591009906 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591009907 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 880591009908 dimer interface [polypeptide binding]; other site 880591009909 conserved gate region; other site 880591009910 putative PBP binding loops; other site 880591009911 ABC-ATPase subunit interface; other site 880591009912 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591009913 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 880591009914 dimer interface [polypeptide binding]; other site 880591009915 conserved gate region; other site 880591009916 putative PBP binding loops; other site 880591009917 ABC-ATPase subunit interface; other site 880591009918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591009919 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 880591009920 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009921 Q-loop/lid; other site 880591009922 ABC transporter signature motif; other site 880591009923 Walker B; other site 880591009924 D-loop; other site 880591009925 H-loop/switch region; other site 880591009926 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591009927 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591009928 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009929 Walker A/P-loop; other site 880591009930 ATP binding site [chemical binding]; other site 880591009931 Q-loop/lid; other site 880591009932 ABC transporter signature motif; other site 880591009933 Walker B; other site 880591009934 D-loop; other site 880591009935 H-loop/switch region; other site 880591009936 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 880591009937 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 880591009938 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 880591009939 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 880591009940 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 880591009941 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 880591009942 hypothetical protein; Provisional; Region: PRK08201 880591009943 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 880591009944 metal binding site [ion binding]; metal-binding site 880591009945 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 880591009946 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 880591009947 Walker A/P-loop; other site 880591009948 ATP binding site [chemical binding]; other site 880591009949 Q-loop/lid; other site 880591009950 ABC transporter signature motif; other site 880591009951 Walker B; other site 880591009952 D-loop; other site 880591009953 H-loop/switch region; other site 880591009954 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 880591009955 dimer interface [polypeptide binding]; other site 880591009956 conserved gate region; other site 880591009957 ABC-ATPase subunit interface; other site 880591009958 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 880591009959 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 880591009960 phosphogluconate dehydratase; Validated; Region: PRK09054 880591009961 6-phosphogluconate dehydratase; Region: edd; TIGR01196 880591009962 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 880591009963 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 880591009964 active site 880591009965 intersubunit interface [polypeptide binding]; other site 880591009966 catalytic residue [active] 880591009967 Transcriptional regulators [Transcription]; Region: FadR; COG2186 880591009968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 880591009969 DNA-binding site [nucleotide binding]; DNA binding site 880591009970 FCD domain; Region: FCD; pfam07729 880591009971 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 880591009972 AAA domain; Region: AAA_33; pfam13671 880591009973 ATP-binding site [chemical binding]; other site 880591009974 Gluconate-6-phosphate binding site [chemical binding]; other site 880591009975 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 880591009976 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 880591009977 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 880591009978 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 880591009979 dimer interface [polypeptide binding]; other site 880591009980 conserved gate region; other site 880591009981 putative PBP binding loops; other site 880591009982 ABC-ATPase subunit interface; other site 880591009983 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 880591009984 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 880591009985 dimer interface [polypeptide binding]; other site 880591009986 conserved gate region; other site 880591009987 putative PBP binding loops; other site 880591009988 ABC-ATPase subunit interface; other site 880591009989 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591009990 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 880591009991 Walker A/P-loop; other site 880591009992 ATP binding site [chemical binding]; other site 880591009993 Q-loop/lid; other site 880591009994 ABC transporter signature motif; other site 880591009995 Walker B; other site 880591009996 D-loop; other site 880591009997 H-loop/switch region; other site 880591009998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591009999 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 880591010000 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 880591010001 Walker A/P-loop; other site 880591010002 ATP binding site [chemical binding]; other site 880591010003 Q-loop/lid; other site 880591010004 ABC transporter signature motif; other site 880591010005 Walker B; other site 880591010006 D-loop; other site 880591010007 H-loop/switch region; other site 880591010008 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 880591010009 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 880591010010 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 880591010011 substrate binding pocket [chemical binding]; other site 880591010012 catalytic triad [active] 880591010013 Transcriptional regulators [Transcription]; Region: MarR; COG1846 880591010014 MarR family; Region: MarR_2; pfam12802 880591010015 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 880591010016 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 880591010017 putative substrate translocation pore; other site