-- dump date 20140619_001628 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1171377000001 protease TldD; Provisional; Region: tldD; PRK10735 1171377000002 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1171377000003 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 1171377000004 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1171377000005 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1171377000006 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1171377000007 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1171377000008 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1171377000009 FIC domain binding interface [polypeptide binding]; other site 1171377000010 Fic/DOC family; Region: Fic; pfam02661 1171377000011 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1171377000012 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 1171377000013 S-adenosylmethionine binding site [chemical binding]; other site 1171377000014 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1171377000015 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 1171377000016 active site 1171377000017 phosphorylation site [posttranslational modification] 1171377000018 intermolecular recognition site; other site 1171377000019 dimerization interface [polypeptide binding]; other site 1171377000020 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 1171377000021 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1171377000022 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 1171377000023 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1171377000024 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1171377000025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377000026 Walker A/P-loop; other site 1171377000027 ATP binding site [chemical binding]; other site 1171377000028 Q-loop/lid; other site 1171377000029 ABC transporter signature motif; other site 1171377000030 Walker B; other site 1171377000031 D-loop; other site 1171377000032 H-loop/switch region; other site 1171377000033 TOBE domain; Region: TOBE_2; pfam08402 1171377000034 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1171377000035 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377000036 dimer interface [polypeptide binding]; other site 1171377000037 conserved gate region; other site 1171377000038 putative PBP binding loops; other site 1171377000039 ABC-ATPase subunit interface; other site 1171377000040 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377000041 dimer interface [polypeptide binding]; other site 1171377000042 conserved gate region; other site 1171377000043 putative PBP binding loops; other site 1171377000044 ABC-ATPase subunit interface; other site 1171377000045 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1171377000046 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377000047 Walker A/P-loop; other site 1171377000048 ATP binding site [chemical binding]; other site 1171377000049 Q-loop/lid; other site 1171377000050 ABC transporter signature motif; other site 1171377000051 Walker B; other site 1171377000052 D-loop; other site 1171377000053 H-loop/switch region; other site 1171377000054 TOBE domain; Region: TOBE_2; pfam08402 1171377000055 F0F1 ATP synthase subunit I; Validated; Region: PRK06099 1171377000056 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1171377000057 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1171377000058 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1171377000059 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1171377000060 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1171377000061 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1171377000062 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1171377000063 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1171377000064 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1171377000065 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 1171377000066 beta subunit interaction interface [polypeptide binding]; other site 1171377000067 Walker A motif; other site 1171377000068 ATP binding site [chemical binding]; other site 1171377000069 Walker B motif; other site 1171377000070 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1171377000071 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1171377000072 core domain interface [polypeptide binding]; other site 1171377000073 delta subunit interface [polypeptide binding]; other site 1171377000074 epsilon subunit interface [polypeptide binding]; other site 1171377000075 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1171377000076 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1171377000077 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 1171377000078 alpha subunit interaction interface [polypeptide binding]; other site 1171377000079 Walker A motif; other site 1171377000080 ATP binding site [chemical binding]; other site 1171377000081 Walker B motif; other site 1171377000082 inhibitor binding site; inhibition site 1171377000083 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1171377000084 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1171377000085 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1171377000086 gamma subunit interface [polypeptide binding]; other site 1171377000087 epsilon subunit interface [polypeptide binding]; other site 1171377000088 LBP interface [polypeptide binding]; other site 1171377000089 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1171377000090 MgtC family; Region: MgtC; pfam02308 1171377000091 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1171377000092 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1171377000093 active site 1171377000094 nucleophile elbow; other site 1171377000095 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1171377000096 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1171377000097 EamA-like transporter family; Region: EamA; pfam00892 1171377000098 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1171377000099 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 1171377000100 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000102 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 1171377000103 dimerization interface [polypeptide binding]; other site 1171377000104 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1171377000105 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 1171377000106 catalytic residues [active] 1171377000107 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1171377000108 putative hydrolase; Provisional; Region: PRK11460 1171377000109 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1171377000110 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1171377000111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1171377000112 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 1171377000113 catalytic residues [active] 1171377000114 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1171377000115 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1171377000116 classical (c) SDRs; Region: SDR_c; cd05233 1171377000117 NAD(P) binding site [chemical binding]; other site 1171377000118 active site 1171377000119 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 1171377000120 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1171377000121 catalytic residues [active] 1171377000122 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1171377000123 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1171377000124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1171377000125 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1171377000126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000128 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1171377000129 putative effector binding pocket; other site 1171377000130 putative dimerization interface [polypeptide binding]; other site 1171377000131 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1171377000132 macrophage migration inhibition factor-like protein; Provisional; Region: PTZ00397 1171377000133 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1171377000134 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1171377000135 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 1171377000136 active site 1171377000137 non-prolyl cis peptide bond; other site 1171377000138 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1171377000139 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1171377000140 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1171377000141 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1171377000142 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1171377000143 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 1171377000144 nucleophilic elbow; other site 1171377000145 catalytic triad; other site 1171377000146 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1171377000147 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 1171377000148 FMN binding site [chemical binding]; other site 1171377000149 substrate binding site [chemical binding]; other site 1171377000150 putative catalytic residue [active] 1171377000151 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000153 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 1171377000154 dimerization interface [polypeptide binding]; other site 1171377000155 putative effector binding pocket; other site 1171377000156 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 1171377000157 Fic family protein [Function unknown]; Region: COG3177 1171377000158 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1171377000159 Fic/DOC family; Region: Fic; pfam02661 1171377000160 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1171377000161 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1171377000162 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1171377000163 putative active site [active] 1171377000164 putative FMN binding site [chemical binding]; other site 1171377000165 putative substrate binding site [chemical binding]; other site 1171377000166 putative catalytic residue [active] 1171377000167 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1171377000168 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1171377000169 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1171377000170 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1171377000171 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1171377000172 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1171377000173 Glutamate binding site [chemical binding]; other site 1171377000174 NAD binding site [chemical binding]; other site 1171377000175 catalytic residues [active] 1171377000176 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1171377000177 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1171377000178 Na binding site [ion binding]; other site 1171377000179 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1171377000180 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 1171377000181 phosphate binding site [ion binding]; other site 1171377000182 transcriptional repressor RbsR; Provisional; Region: PRK10423 1171377000183 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1171377000184 DNA binding site [nucleotide binding] 1171377000185 domain linker motif; other site 1171377000186 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1171377000187 D-ribose pyranase; Provisional; Region: PRK11797 1171377000188 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1171377000189 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1171377000190 Walker A/P-loop; other site 1171377000191 ATP binding site [chemical binding]; other site 1171377000192 Q-loop/lid; other site 1171377000193 ABC transporter signature motif; other site 1171377000194 Walker B; other site 1171377000195 D-loop; other site 1171377000196 H-loop/switch region; other site 1171377000197 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1171377000198 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1171377000199 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1171377000200 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 1171377000201 TM-ABC transporter signature motif; other site 1171377000202 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1171377000203 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1171377000204 ligand binding site [chemical binding]; other site 1171377000205 dimerization interface [polypeptide binding]; other site 1171377000206 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1171377000207 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1171377000208 substrate binding site [chemical binding]; other site 1171377000209 dimer interface [polypeptide binding]; other site 1171377000210 ATP binding site [chemical binding]; other site 1171377000211 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1171377000212 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1171377000213 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1171377000214 active site turn [active] 1171377000215 phosphorylation site [posttranslational modification] 1171377000216 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1171377000217 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1171377000218 active site 1171377000219 nucleophile elbow; other site 1171377000220 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1171377000221 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 1171377000222 putative C-terminal domain interface [polypeptide binding]; other site 1171377000223 putative GSH binding site (G-site) [chemical binding]; other site 1171377000224 putative dimer interface [polypeptide binding]; other site 1171377000225 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1171377000226 N-terminal domain interface [polypeptide binding]; other site 1171377000227 dimer interface [polypeptide binding]; other site 1171377000228 substrate binding pocket (H-site) [chemical binding]; other site 1171377000229 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1171377000230 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1171377000231 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1171377000232 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1171377000233 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1171377000234 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1171377000235 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1171377000236 dinuclear metal binding motif [ion binding]; other site 1171377000237 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 1171377000238 putative FMN binding site [chemical binding]; other site 1171377000239 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1171377000240 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 1171377000241 putative active site [active] 1171377000242 putative FMN binding site [chemical binding]; other site 1171377000243 putative substrate binding site [chemical binding]; other site 1171377000244 putative catalytic residue [active] 1171377000245 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 1171377000246 dimerization interface [polypeptide binding]; other site 1171377000247 putative DNA binding site [nucleotide binding]; other site 1171377000248 putative Zn2+ binding site [ion binding]; other site 1171377000249 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1171377000250 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1171377000251 ACT domain; Region: ACT_3; pfam10000 1171377000252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 1171377000253 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1171377000254 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1171377000255 Isochorismatase family; Region: Isochorismatase; pfam00857 1171377000256 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 1171377000257 catalytic triad [active] 1171377000258 conserved cis-peptide bond; other site 1171377000259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000261 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 1171377000262 putative effector binding pocket; other site 1171377000263 dimerization interface [polypeptide binding]; other site 1171377000264 classical (c) SDRs; Region: SDR_c; cd05233 1171377000265 short chain dehydrogenase; Provisional; Region: PRK06172 1171377000266 NAD(P) binding site [chemical binding]; other site 1171377000267 active site 1171377000268 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1171377000269 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1171377000270 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1171377000271 NADH kinase; Region: PLN02929 1171377000272 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1171377000273 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1171377000274 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1171377000275 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377000276 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1171377000277 putative substrate translocation pore; other site 1171377000278 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1171377000279 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1171377000280 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1171377000281 Helix-turn-helix domain; Region: HTH_38; pfam13936 1171377000282 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1171377000283 Integrase core domain; Region: rve; pfam00665 1171377000284 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1171377000285 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1171377000286 Ribosomal RNA adenine dimethylase; Region: RrnaAD; pfam00398 1171377000287 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 1171377000288 S-adenosylmethionine binding site [chemical binding]; other site 1171377000289 Phosphotransferase enzyme family; Region: APH; pfam01636 1171377000290 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1171377000291 active site 1171377000292 ATP binding site [chemical binding]; other site 1171377000293 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1171377000294 active site 1171377000295 ATP binding site [chemical binding]; other site 1171377000296 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1171377000297 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1171377000298 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 1171377000299 Putative transposase; Region: Y2_Tnp; pfam04986 1171377000300 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1171377000301 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377000302 putative substrate translocation pore; other site 1171377000303 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1171377000304 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 1171377000305 Putative transposase; Region: Y2_Tnp; pfam04986 1171377000306 dihydropteroate synthase; Region: DHPS; TIGR01496 1171377000307 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1171377000308 substrate binding pocket [chemical binding]; other site 1171377000309 dimer interface [polypeptide binding]; other site 1171377000310 inhibitor binding site; inhibition site 1171377000311 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1171377000312 Phosphotransferase enzyme family; Region: APH; pfam01636 1171377000313 active site 1171377000314 ATP binding site [chemical binding]; other site 1171377000315 antibiotic binding site [chemical binding]; other site 1171377000316 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; pfam04655 1171377000317 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1171377000318 Phosphotransferase enzyme family; Region: APH; pfam01636 1171377000319 active site 1171377000320 ATP binding site [chemical binding]; other site 1171377000321 antibiotic binding site [chemical binding]; other site 1171377000322 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1171377000323 Integrase core domain; Region: rve; pfam00665 1171377000324 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1171377000325 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377000326 ABC transporter; Region: ABC_tran_2; pfam12848 1171377000327 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377000328 Macrolide 2'-Phosphotransferase (MPH2'). MPH2' is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase; Region: MPH2' cd05152 1171377000329 putative active site [active] 1171377000330 putative substrate binding site [chemical binding]; other site 1171377000331 Phosphotransferase enzyme family; Region: APH; pfam01636 1171377000332 ATP binding site [chemical binding]; other site 1171377000333 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1171377000334 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1171377000335 Integrase core domain; Region: rve; pfam00665 1171377000336 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1171377000337 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1171377000338 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1171377000339 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377000340 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1171377000341 putative substrate translocation pore; other site 1171377000342 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1171377000343 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1171377000344 MarR family; Region: MarR_2; pfam12802 1171377000345 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1171377000346 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1171377000347 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1171377000348 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1171377000349 DNA binding residues [nucleotide binding] 1171377000350 dimer interface [polypeptide binding]; other site 1171377000351 copper binding site [ion binding]; other site 1171377000352 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1171377000353 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1171377000354 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1171377000355 DNA binding residues [nucleotide binding] 1171377000356 dimer interface [polypeptide binding]; other site 1171377000357 putative metal binding site [ion binding]; other site 1171377000358 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 1171377000359 catalytic triad [active] 1171377000360 conserved cis-peptide bond; other site 1171377000361 Predicted membrane protein [Function unknown]; Region: COG2259 1171377000362 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377000363 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1171377000364 putative substrate translocation pore; other site 1171377000365 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1171377000366 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1171377000367 catalytic residues [active] 1171377000368 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1171377000369 active site 1 [active] 1171377000370 dimer interface [polypeptide binding]; other site 1171377000371 hexamer interface [polypeptide binding]; other site 1171377000372 active site 2 [active] 1171377000373 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1171377000374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000376 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 1171377000377 putative effector binding pocket; other site 1171377000378 dimerization interface [polypeptide binding]; other site 1171377000379 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1171377000380 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000382 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 1171377000383 putative effector binding pocket; other site 1171377000384 putative dimerization interface [polypeptide binding]; other site 1171377000385 Uncharacterized conserved protein [Function unknown]; Region: COG4925 1171377000386 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1171377000387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000389 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 1171377000390 putative effector binding pocket; other site 1171377000391 putative dimerization interface [polypeptide binding]; other site 1171377000392 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1171377000393 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1171377000394 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1171377000395 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1171377000396 putative acyl-acceptor binding pocket; other site 1171377000397 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1171377000398 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1171377000399 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1171377000400 Predicted transcriptional regulators [Transcription]; Region: COG1733 1171377000401 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1171377000402 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000403 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 1171377000404 dimerization interface [polypeptide binding]; other site 1171377000405 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 1171377000406 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1171377000407 MarR family; Region: MarR; pfam01047 1171377000408 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1171377000409 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1171377000410 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1171377000411 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1171377000412 SlyX; Region: SlyX; cl01090 1171377000413 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1171377000414 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1171377000415 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1171377000416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1171377000417 YheO-like PAS domain; Region: PAS_6; pfam08348 1171377000418 HTH domain; Region: HTH_22; pfam13309 1171377000419 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1171377000420 DsrE/DsrF-like family; Region: DrsE; cl00672 1171377000421 DsrH like protein; Region: DsrH; cl17347 1171377000422 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1171377000423 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1171377000424 G1 box; other site 1171377000425 putative GEF interaction site [polypeptide binding]; other site 1171377000426 GTP/Mg2+ binding site [chemical binding]; other site 1171377000427 Switch I region; other site 1171377000428 G2 box; other site 1171377000429 G3 box; other site 1171377000430 Switch II region; other site 1171377000431 G4 box; other site 1171377000432 G5 box; other site 1171377000433 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1171377000434 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1171377000435 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1171377000436 DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is...; Region: DEP; cl02442 1171377000437 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1171377000438 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1171377000439 MutS domain I; Region: MutS_I; pfam01624 1171377000440 MutS domain II; Region: MutS_II; pfam05188 1171377000441 MutS domain III; Region: MutS_III; pfam05192 1171377000442 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1171377000443 Walker A/P-loop; other site 1171377000444 ATP binding site [chemical binding]; other site 1171377000445 Q-loop/lid; other site 1171377000446 ABC transporter signature motif; other site 1171377000447 Walker B; other site 1171377000448 D-loop; other site 1171377000449 H-loop/switch region; other site 1171377000450 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1171377000451 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1171377000452 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1171377000453 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1171377000454 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1171377000455 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1171377000456 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1171377000457 NADP binding site [chemical binding]; other site 1171377000458 homopentamer interface [polypeptide binding]; other site 1171377000459 substrate binding site [chemical binding]; other site 1171377000460 active site 1171377000461 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1171377000462 catalytic triad [active] 1171377000463 putative active site [active] 1171377000464 autotransporter-associated beta strand repeat; Region: autotrns_rpt; TIGR02601 1171377000465 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 1171377000466 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1171377000467 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1171377000468 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1171377000469 intersubunit interface [polypeptide binding]; other site 1171377000470 active site 1171377000471 Zn2+ binding site [ion binding]; other site 1171377000472 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1171377000473 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; cd00019 1171377000474 AP (apurinic/apyrimidinic) site pocket; other site 1171377000475 DNA interaction; other site 1171377000476 Metal-binding active site; metal-binding site 1171377000477 transcriptional repressor UlaR; Provisional; Region: PRK13509 1171377000478 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1171377000479 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1171377000480 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1171377000481 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1171377000482 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 1171377000483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1171377000484 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1171377000485 active site 1171377000486 P-loop; other site 1171377000487 phosphorylation site [posttranslational modification] 1171377000488 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 1171377000489 active site 1171377000490 phosphorylation site [posttranslational modification] 1171377000491 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1171377000492 active site 1171377000493 dimer interface [polypeptide binding]; other site 1171377000494 magnesium binding site [ion binding]; other site 1171377000495 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1171377000496 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1171377000497 active site 1171377000498 active pocket/dimerization site; other site 1171377000499 phosphorylation site [posttranslational modification] 1171377000500 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1171377000501 active site 1171377000502 phosphorylation site [posttranslational modification] 1171377000503 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1171377000504 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1171377000505 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 1171377000506 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1171377000507 active site 1171377000508 motif I; other site 1171377000509 motif II; other site 1171377000510 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 1171377000511 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1171377000512 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1171377000513 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 1171377000514 Shikimate kinase; Region: SKI; pfam01202 1171377000515 ATP-binding site [chemical binding]; other site 1171377000516 Gluconate-6-phosphate binding site [chemical binding]; other site 1171377000517 Predicted membrane protein [Function unknown]; Region: COG4325 1171377000518 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1171377000519 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1171377000520 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1171377000521 active site 1171377000522 HIGH motif; other site 1171377000523 dimer interface [polypeptide binding]; other site 1171377000524 KMSKS motif; other site 1171377000525 Bor protein; Region: Lambda_Bor; pfam06291 1171377000526 Bor protein; Region: Lambda_Bor; pfam06291 1171377000527 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1171377000528 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1171377000529 putative active site [active] 1171377000530 putative metal binding site [ion binding]; other site 1171377000531 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1171377000532 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 1171377000533 active site 1171377000534 Protein of unknown function (DUF454); Region: DUF454; cl01063 1171377000535 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 1171377000536 MPT binding site; other site 1171377000537 trimer interface [polypeptide binding]; other site 1171377000538 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1171377000539 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1171377000540 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1171377000541 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1171377000542 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1171377000543 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1171377000544 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 1171377000545 CoenzymeA binding site [chemical binding]; other site 1171377000546 subunit interaction site [polypeptide binding]; other site 1171377000547 PHB binding site; other site 1171377000548 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 1171377000549 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 1171377000550 inhibitor-cofactor binding pocket; inhibition site 1171377000551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377000552 catalytic residue [active] 1171377000553 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1171377000554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377000555 catalytic residue [active] 1171377000556 CAAX protease self-immunity; Region: Abi; pfam02517 1171377000557 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1171377000558 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1171377000559 homooctamer interface [polypeptide binding]; other site 1171377000560 active site 1171377000561 cytidine deaminase; Provisional; Region: PRK09027 1171377000562 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 1171377000563 active site 1171377000564 catalytic motif [active] 1171377000565 Zn binding site [ion binding]; other site 1171377000566 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 1171377000567 two-component response regulator; Provisional; Region: PRK11173 1171377000568 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 1171377000569 active site 1171377000570 phosphorylation site [posttranslational modification] 1171377000571 intermolecular recognition site; other site 1171377000572 dimerization interface [polypeptide binding]; other site 1171377000573 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 1171377000574 DNA binding site [nucleotide binding] 1171377000575 chaperone protein DnaJ; Provisional; Region: PRK10767 1171377000576 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 1171377000577 HSP70 interaction site [polypeptide binding]; other site 1171377000578 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1171377000579 substrate binding site [polypeptide binding]; other site 1171377000580 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1171377000581 Zn binding sites [ion binding]; other site 1171377000582 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1171377000583 dimer interface [polypeptide binding]; other site 1171377000584 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1171377000585 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1171377000586 nucleotide binding site [chemical binding]; other site 1171377000587 Mg chelatase-related protein; Region: TIGR00368 1171377000588 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1171377000589 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 1171377000590 Walker A motif; other site 1171377000591 ATP binding site [chemical binding]; other site 1171377000592 Walker B motif; other site 1171377000593 arginine finger; other site 1171377000594 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1171377000595 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1171377000596 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1171377000597 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1171377000598 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1171377000599 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 1171377000600 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1171377000601 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 1171377000602 N-terminal plug; other site 1171377000603 ligand-binding site [chemical binding]; other site 1171377000604 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1171377000605 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1171377000606 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1171377000607 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1171377000608 bacterial Hfq-like; Region: Hfq; cd01716 1171377000609 hexamer interface [polypeptide binding]; other site 1171377000610 Sm1 motif; other site 1171377000611 RNA binding site [nucleotide binding]; other site 1171377000612 Sm2 motif; other site 1171377000613 GTPase HflX; Provisional; Region: PRK11058 1171377000614 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1171377000615 HflX GTPase family; Region: HflX; cd01878 1171377000616 G1 box; other site 1171377000617 GTP/Mg2+ binding site [chemical binding]; other site 1171377000618 Switch I region; other site 1171377000619 G2 box; other site 1171377000620 G3 box; other site 1171377000621 Switch II region; other site 1171377000622 G4 box; other site 1171377000623 G5 box; other site 1171377000624 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1171377000625 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1171377000626 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1171377000627 FAD binding domain; Region: FAD_binding_4; pfam01565 1171377000628 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1171377000629 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1171377000630 outer membrane protein A; Reviewed; Region: PRK10808 1171377000631 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1171377000632 ligand binding site [chemical binding]; other site 1171377000633 outer membrane protein A; Reviewed; Region: PRK10808 1171377000634 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1171377000635 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1171377000636 ligand binding site [chemical binding]; other site 1171377000637 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 1171377000638 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1171377000639 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1171377000640 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 1171377000641 active site 2 [active] 1171377000642 active site 1 [active] 1171377000643 hypothetical protein; Provisional; Region: PRK10506 1171377000644 hypothetical protein; Provisional; Region: PRK10506 1171377000645 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1171377000646 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1171377000647 protease3; Provisional; Region: PRK15101 1171377000648 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1171377000649 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1171377000650 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1171377000651 cell density-dependent motility repressor; Provisional; Region: PRK10082 1171377000652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000653 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 1171377000654 dimerization interface [polypeptide binding]; other site 1171377000655 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1171377000656 aspartate racemase; Region: asp_race; TIGR00035 1171377000657 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1171377000658 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1171377000659 TfoX N-terminal domain; Region: TfoX_N; cl17592 1171377000660 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1171377000661 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1171377000662 EamA-like transporter family; Region: EamA; cl17759 1171377000663 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000665 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 1171377000666 dimerization interface [polypeptide binding]; other site 1171377000667 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1171377000668 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1171377000669 active site 1171377000670 FMN binding site [chemical binding]; other site 1171377000671 substrate binding site [chemical binding]; other site 1171377000672 homotetramer interface [polypeptide binding]; other site 1171377000673 catalytic residue [active] 1171377000674 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1171377000675 dimer interface [polypeptide binding]; other site 1171377000676 FMN binding site [chemical binding]; other site 1171377000677 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1171377000678 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1171377000679 putative NAD(P) binding site [chemical binding]; other site 1171377000680 putative substrate binding site [chemical binding]; other site 1171377000681 catalytic Zn binding site [ion binding]; other site 1171377000682 structural Zn binding site [ion binding]; other site 1171377000683 dimer interface [polypeptide binding]; other site 1171377000684 putative oxidoreductase; Provisional; Region: PRK11579 1171377000685 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1171377000686 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1171377000687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377000688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000689 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 1171377000690 putative effector binding pocket; other site 1171377000691 putative dimerization interface [polypeptide binding]; other site 1171377000692 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1171377000693 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 1171377000694 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 1171377000695 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1171377000696 active site 1171377000697 catalytic tetrad [active] 1171377000698 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 1171377000699 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1171377000700 catalytic site [active] 1171377000701 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1171377000702 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1171377000703 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1171377000704 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1171377000705 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1171377000706 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 1171377000707 substrate binding pocket [chemical binding]; other site 1171377000708 catalytic triad [active] 1171377000709 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1171377000710 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1171377000711 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1171377000712 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 1171377000713 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1171377000714 catalytic residues [active] 1171377000715 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1171377000716 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1171377000717 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1171377000718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377000719 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 1171377000720 dimerization interface [polypeptide binding]; other site 1171377000721 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1171377000722 FAD binding domain; Region: FAD_binding_4; pfam01565 1171377000723 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1171377000724 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1171377000725 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1171377000726 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1171377000727 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1171377000728 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1171377000729 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1171377000730 Probable transposase; Region: OrfB_IS605; pfam01385 1171377000731 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1171377000732 hypothetical protein; Provisional; Region: PRK11820 1171377000733 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1171377000734 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1171377000735 ribonuclease PH; Reviewed; Region: rph; PRK00173 1171377000736 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1171377000737 hexamer interface [polypeptide binding]; other site 1171377000738 active site 1171377000739 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 1171377000740 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1171377000741 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1171377000742 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1171377000743 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1171377000744 DNA binding site [nucleotide binding] 1171377000745 catalytic residue [active] 1171377000746 H2TH interface [polypeptide binding]; other site 1171377000747 putative catalytic residues [active] 1171377000748 turnover-facilitating residue; other site 1171377000749 intercalation triad [nucleotide binding]; other site 1171377000750 8OG recognition residue [nucleotide binding]; other site 1171377000751 putative reading head residues; other site 1171377000752 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1171377000753 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1171377000754 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 1171377000755 catalytic triad [active] 1171377000756 putative active site [active] 1171377000757 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1171377000758 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1171377000759 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1171377000760 dimerization interface [polypeptide binding]; other site 1171377000761 thymidylate kinase; Validated; Region: tmk; PRK00698 1171377000762 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 1171377000763 TMP-binding site; other site 1171377000764 ATP-binding site [chemical binding]; other site 1171377000765 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1171377000766 DNA polymerase III subunit delta'; Validated; Region: PRK06871 1171377000767 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1171377000768 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1171377000769 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1171377000770 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 1171377000771 S-adenosylmethionine binding site [chemical binding]; other site 1171377000772 pantothenate kinase; Provisional; Region: PRK05439 1171377000773 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 1171377000774 ATP-binding site [chemical binding]; other site 1171377000775 CoA-binding site [chemical binding]; other site 1171377000776 Mg2+-binding site [ion binding]; other site 1171377000777 elongation factor Tu; Reviewed; Region: PRK00049 1171377000778 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1171377000779 G1 box; other site 1171377000780 GEF interaction site [polypeptide binding]; other site 1171377000781 GTP/Mg2+ binding site [chemical binding]; other site 1171377000782 Switch I region; other site 1171377000783 G2 box; other site 1171377000784 G3 box; other site 1171377000785 Switch II region; other site 1171377000786 G4 box; other site 1171377000787 G5 box; other site 1171377000788 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 1171377000789 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 1171377000790 Antibiotic Binding Site [chemical binding]; other site 1171377000791 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1171377000792 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1171377000793 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1171377000794 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1171377000795 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 1171377000796 dimerization interface [polypeptide binding]; other site 1171377000797 putative DNA binding site [nucleotide binding]; other site 1171377000798 putative Zn2+ binding site [ion binding]; other site 1171377000799 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1171377000800 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 1171377000801 putative active site [active] 1171377000802 putative FMN binding site [chemical binding]; other site 1171377000803 putative substrate binding site [chemical binding]; other site 1171377000804 putative catalytic residue [active] 1171377000805 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1171377000806 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 1171377000807 Ligand Binding Site [chemical binding]; other site 1171377000808 TilS substrate binding domain; Region: TilS; pfam09179 1171377000809 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1171377000810 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 1171377000811 putative active site [active] 1171377000812 dimerization interface [polypeptide binding]; other site 1171377000813 putative tRNAtyr binding site [nucleotide binding]; other site 1171377000814 hypothetical protein; Reviewed; Region: PRK01637 1171377000815 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1171377000816 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1171377000817 putative catalytic cysteine [active] 1171377000818 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1171377000819 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 1171377000820 S-adenosylmethionine binding site [chemical binding]; other site 1171377000821 hypothetical protein; Provisional; Region: PRK11027 1171377000822 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1171377000823 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1171377000824 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1171377000825 active site 1171377000826 P-loop; other site 1171377000827 phosphorylation site [posttranslational modification] 1171377000828 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 1171377000829 active site 1171377000830 phosphorylation site [posttranslational modification] 1171377000831 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1171377000832 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1171377000833 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1171377000834 Mannitol repressor; Region: MtlR; cl11450 1171377000835 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1171377000836 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional; Region: PRK14489 1171377000837 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1171377000838 GTP binding site; other site 1171377000839 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1171377000840 Walker A motif; other site 1171377000841 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 1171377000842 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1171377000843 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1171377000844 catalytic residues [active] 1171377000845 hinge region; other site 1171377000846 alpha helical domain; other site 1171377000847 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1171377000848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1171377000849 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 1171377000850 DNA binding residues [nucleotide binding] 1171377000851 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49); Region: G6PD_bact; pfam10786 1171377000852 FMN-binding protein MioC; Provisional; Region: PRK09004 1171377000853 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1171377000854 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1171377000855 active site 1171377000856 metal binding site [ion binding]; metal-binding site 1171377000857 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1171377000858 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1171377000859 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 1171377000860 dimer interface [polypeptide binding]; other site 1171377000861 motif 1; other site 1171377000862 active site 1171377000863 motif 2; other site 1171377000864 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1171377000865 putative deacylase active site [active] 1171377000866 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 1171377000867 active site 1171377000868 motif 3; other site 1171377000869 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 1171377000870 anticodon binding site; other site 1171377000871 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1171377000872 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1171377000873 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1171377000874 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1171377000875 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1171377000876 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1171377000877 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1171377000878 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377000879 acyl carrier protein; Provisional; Region: acpP; PRK00982 1171377000880 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1171377000881 Predicted membrane protein [Function unknown]; Region: COG2510 1171377000882 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1171377000883 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1171377000884 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 1171377000885 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1171377000886 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1171377000887 Haem-binding domain; Region: Haem_bd; pfam14376 1171377000888 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1171377000889 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1171377000890 transmembrane helices; other site 1171377000891 TrkA-C domain; Region: TrkA_C; pfam02080 1171377000892 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1171377000893 TrkA-C domain; Region: TrkA_C; pfam02080 1171377000894 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1171377000895 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1171377000896 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 1171377000897 dimerization interface [polypeptide binding]; other site 1171377000898 ATP binding site [chemical binding]; other site 1171377000899 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 1171377000900 dimerization interface [polypeptide binding]; other site 1171377000901 ATP binding site [chemical binding]; other site 1171377000902 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1171377000903 putative active site [active] 1171377000904 catalytic triad [active] 1171377000905 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 1171377000906 Transposase IS200 like; Region: Y1_Tnp; cl00848 1171377000907 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1171377000908 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377000909 trimer interface [polypeptide binding]; other site 1171377000910 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1171377000911 trimer interface [polypeptide binding]; other site 1171377000912 YadA-like C-terminal region; Region: YadA; pfam03895 1171377000913 Cation transport protein; Region: TrkH; cl17365 1171377000914 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1171377000915 poxB regulator PoxA; Provisional; Region: PRK09350 1171377000916 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 1171377000917 motif 1; other site 1171377000918 dimer interface [polypeptide binding]; other site 1171377000919 active site 1171377000920 motif 2; other site 1171377000921 motif 3; other site 1171377000922 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1171377000923 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1171377000924 active site 1171377000925 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1171377000926 Cupin superfamily protein; Region: Cupin_4; pfam08007 1171377000927 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 1171377000928 conserved cys residue [active] 1171377000929 BioY family; Region: BioY; pfam02632 1171377000930 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 1171377000931 dimer interface [polypeptide binding]; other site 1171377000932 motif 1; other site 1171377000933 active site 1171377000934 motif 2; other site 1171377000935 motif 3; other site 1171377000936 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]; Region: COG4545 1171377000937 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1171377000938 putative active site [active] 1171377000939 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1171377000940 tRNA binding surface [nucleotide binding]; other site 1171377000941 anticodon binding site; other site 1171377000942 DALR anticodon binding domain; Region: DALR_1; pfam05746 1171377000943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1755 1171377000944 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1171377000945 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1171377000946 active site 1171377000947 Int/Topo IB signature motif; other site 1171377000948 Predicted membrane protein [Function unknown]; Region: COG3671 1171377000949 Asparagine synthetase A [Amino acid transport and metabolism]; Region: AsnA; COG2502 1171377000950 motif 1; other site 1171377000951 dimer interface [polypeptide binding]; other site 1171377000952 active site 1171377000953 motif 2; other site 1171377000954 motif 3; other site 1171377000955 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1171377000956 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 1171377000957 putative DNA binding site [nucleotide binding]; other site 1171377000958 putative Zn2+ binding site [ion binding]; other site 1171377000959 AsnC family; Region: AsnC_trans_reg; pfam01037 1171377000960 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 1171377000961 motif II; other site 1171377000962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1171377000963 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1171377000964 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1171377000965 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1171377000966 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1171377000967 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 1171377000968 Iron-sulfur protein interface; other site 1171377000969 proximal quinone binding site [chemical binding]; other site 1171377000970 C-subunit interface; other site 1171377000971 distal quinone binding site; other site 1171377000972 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 1171377000973 D-subunit interface [polypeptide binding]; other site 1171377000974 Iron-sulfur protein interface; other site 1171377000975 proximal quinone binding site [chemical binding]; other site 1171377000976 distal quinone binding site [chemical binding]; other site 1171377000977 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1171377000978 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1171377000979 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1171377000980 L-aspartate oxidase; Provisional; Region: PRK06175 1171377000981 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1171377000982 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1171377000983 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 1171377000984 Protein of unknown function, DUF399; Region: DUF399; cl01139 1171377000985 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1171377000986 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1171377000987 Walker A/P-loop; other site 1171377000988 ATP binding site [chemical binding]; other site 1171377000989 Q-loop/lid; other site 1171377000990 ABC transporter signature motif; other site 1171377000991 Walker B; other site 1171377000992 D-loop; other site 1171377000993 H-loop/switch region; other site 1171377000994 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1171377000995 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 1171377000996 ABC-ATPase subunit interface; other site 1171377000997 dimer interface [polypeptide binding]; other site 1171377000998 putative PBP binding regions; other site 1171377000999 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1171377001000 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1171377001001 putative hemin binding site; other site 1171377001002 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1171377001003 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1171377001004 inhibitor-cofactor binding pocket; inhibition site 1171377001005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377001006 catalytic residue [active] 1171377001007 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 1171377001008 WzyE protein; Region: WzyE; cl11643 1171377001009 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1171377001010 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1171377001011 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1171377001012 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 1171377001013 dimerization interface [polypeptide binding]; other site 1171377001014 domain crossover interface; other site 1171377001015 redox-dependent activation switch; other site 1171377001016 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 1171377001017 RNA binding surface [nucleotide binding]; other site 1171377001018 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1171377001019 Lipoprotein GNA1870 C terminal like; Region: Lipoprot_C; pfam08794 1171377001020 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1171377001021 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1171377001022 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 1171377001023 RNA binding site [nucleotide binding]; other site 1171377001024 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 1171377001025 multimer interface [polypeptide binding]; other site 1171377001026 Walker A motif; other site 1171377001027 ATP binding site [chemical binding]; other site 1171377001028 Walker B motif; other site 1171377001029 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1171377001030 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1171377001031 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1171377001032 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1171377001033 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1171377001034 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1171377001035 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1171377001036 G1 box; other site 1171377001037 putative GEF interaction site [polypeptide binding]; other site 1171377001038 GTP/Mg2+ binding site [chemical binding]; other site 1171377001039 Switch I region; other site 1171377001040 G2 box; other site 1171377001041 G3 box; other site 1171377001042 Switch II region; other site 1171377001043 G4 box; other site 1171377001044 G5 box; other site 1171377001045 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 1171377001046 elongation factor Tu; Reviewed; Region: PRK00049 1171377001047 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1171377001048 G1 box; other site 1171377001049 GEF interaction site [polypeptide binding]; other site 1171377001050 GTP/Mg2+ binding site [chemical binding]; other site 1171377001051 Switch I region; other site 1171377001052 G2 box; other site 1171377001053 G3 box; other site 1171377001054 Switch II region; other site 1171377001055 G4 box; other site 1171377001056 G5 box; other site 1171377001057 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 1171377001058 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 1171377001059 Antibiotic Binding Site [chemical binding]; other site 1171377001060 elongation factor G; Reviewed; Region: PRK00007 1171377001061 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1171377001062 G1 box; other site 1171377001063 putative GEF interaction site [polypeptide binding]; other site 1171377001064 GTP/Mg2+ binding site [chemical binding]; other site 1171377001065 Switch I region; other site 1171377001066 G2 box; other site 1171377001067 G3 box; other site 1171377001068 Switch II region; other site 1171377001069 G4 box; other site 1171377001070 G5 box; other site 1171377001071 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 1171377001072 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 1171377001073 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 1171377001074 30S ribosomal protein S7; Validated; Region: PRK05302 1171377001075 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1171377001076 S17 interaction site [polypeptide binding]; other site 1171377001077 S8 interaction site; other site 1171377001078 16S rRNA interaction site [nucleotide binding]; other site 1171377001079 streptomycin interaction site [chemical binding]; other site 1171377001080 23S rRNA interaction site [nucleotide binding]; other site 1171377001081 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1171377001082 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1171377001083 DNA primase; Validated; Region: dnaG; PRK05667 1171377001084 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1171377001085 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1171377001086 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 1171377001087 active site 1171377001088 metal binding site [ion binding]; metal-binding site 1171377001089 interdomain interaction site; other site 1171377001090 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1171377001091 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1171377001092 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1171377001093 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1171377001094 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1171377001095 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1171377001096 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1171377001097 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1171377001098 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 1171377001099 DNA binding residues [nucleotide binding] 1171377001100 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1171377001101 transaldolase-like protein; Provisional; Region: PTZ00411 1171377001102 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1171377001103 active site 1171377001104 dimer interface [polypeptide binding]; other site 1171377001105 catalytic residue [active] 1171377001106 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1171377001107 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1171377001108 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1171377001109 putative active site [active] 1171377001110 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1171377001111 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1171377001112 Walker A/P-loop; other site 1171377001113 ATP binding site [chemical binding]; other site 1171377001114 Q-loop/lid; other site 1171377001115 ABC transporter signature motif; other site 1171377001116 Walker B; other site 1171377001117 D-loop; other site 1171377001118 H-loop/switch region; other site 1171377001119 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1171377001120 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1171377001121 HlyD family secretion protein; Region: HlyD_3; pfam13437 1171377001122 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1171377001123 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1171377001124 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1171377001125 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1171377001126 ligand binding site [chemical binding]; other site 1171377001127 NAD binding site [chemical binding]; other site 1171377001128 tetramer interface [polypeptide binding]; other site 1171377001129 catalytic site [active] 1171377001130 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1171377001131 L-serine binding site [chemical binding]; other site 1171377001132 ACT domain interface; other site 1171377001133 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 1171377001134 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1171377001135 active site 1171377001136 dimer interface [polypeptide binding]; other site 1171377001137 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1171377001138 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1171377001139 active site 1171377001140 substrate binding site [chemical binding]; other site 1171377001141 metal binding site [ion binding]; metal-binding site 1171377001142 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1171377001143 hypothetical protein; Provisional; Region: PRK11573 1171377001144 Domain of unknown function DUF21; Region: DUF21; pfam01595 1171377001145 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 1171377001146 Transporter associated domain; Region: CorC_HlyC; smart01091 1171377001147 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1171377001148 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1171377001149 substrate binding pocket [chemical binding]; other site 1171377001150 chain length determination region; other site 1171377001151 substrate-Mg2+ binding site; other site 1171377001152 catalytic residues [active] 1171377001153 aspartate-rich region 1; other site 1171377001154 active site lid residues [active] 1171377001155 aspartate-rich region 2; other site 1171377001156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1171377001157 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1171377001158 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1171377001159 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1171377001160 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1171377001161 NAD(P) binding site [chemical binding]; other site 1171377001162 homotetramer interface [polypeptide binding]; other site 1171377001163 homodimer interface [polypeptide binding]; other site 1171377001164 active site 1171377001165 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1171377001166 Conserved TM helix; Region: TM_helix; pfam05552 1171377001167 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1171377001168 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1171377001169 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1171377001170 homodimer interface [polypeptide binding]; other site 1171377001171 oligonucleotide binding site [chemical binding]; other site 1171377001172 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1171377001173 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1171377001174 HIGH motif; other site 1171377001175 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1171377001176 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1171377001177 active site 1171377001178 KMSKS motif; other site 1171377001179 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1171377001180 tRNA binding surface [nucleotide binding]; other site 1171377001181 anticodon binding site; other site 1171377001182 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1171377001183 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 1171377001184 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1171377001185 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1171377001186 Coenzyme A binding pocket [chemical binding]; other site 1171377001187 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1171377001188 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1171377001189 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1171377001190 EamA-like transporter family; Region: EamA; pfam00892 1171377001191 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1171377001192 TRAM domain; Region: TRAM; pfam01938 1171377001193 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 1171377001194 S-adenosylmethionine binding site [chemical binding]; other site 1171377001195 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1171377001196 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 1171377001197 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1171377001198 ATP-dependent helicase HepA; Validated; Region: PRK04914 1171377001199 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 1171377001200 ATP binding site [chemical binding]; other site 1171377001201 putative Mg++ binding site [ion binding]; other site 1171377001202 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 1171377001203 nucleotide binding region [chemical binding]; other site 1171377001204 ATP-binding site [chemical binding]; other site 1171377001205 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1171377001206 CPxP motif; other site 1171377001207 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1171377001208 Sulphur transport; Region: Sulf_transp; pfam04143 1171377001209 hypothetical protein; Provisional; Region: PRK04860 1171377001210 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1171377001211 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 1171377001212 B1 nucleotide binding pocket [chemical binding]; other site 1171377001213 B2 nucleotide binding pocket [chemical binding]; other site 1171377001214 CAS motifs; other site 1171377001215 active site 1171377001216 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1171377001217 Sodium Bile acid symporter family; Region: SBF; pfam01758 1171377001218 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1171377001219 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 1171377001220 dimer interface [polypeptide binding]; other site 1171377001221 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377001222 catalytic residue [active] 1171377001223 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1171377001224 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1171377001225 Walker A/P-loop; other site 1171377001226 ATP binding site [chemical binding]; other site 1171377001227 Q-loop/lid; other site 1171377001228 ABC transporter signature motif; other site 1171377001229 Walker B; other site 1171377001230 D-loop; other site 1171377001231 H-loop/switch region; other site 1171377001232 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1171377001233 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1171377001234 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1171377001235 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1171377001236 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1171377001237 glycerol-3-phosphate cytidylyltransferase; Region: G3P_Cytidylyltransferase; cd02171 1171377001238 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1171377001239 active site 1171377001240 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1171377001241 LicD family; Region: LicD; pfam04991 1171377001242 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 1171377001243 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1171377001244 binding surface 1171377001245 TPR motif; other site 1171377001246 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 1171377001247 TPR motif; other site 1171377001248 binding surface 1171377001249 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 1171377001250 binding surface 1171377001251 TPR motif; other site 1171377001252 TPR repeat; Region: TPR_11; pfam13414 1171377001253 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 1171377001254 binding surface 1171377001255 TPR motif; other site 1171377001256 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1171377001257 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 1171377001258 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1171377001259 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1171377001260 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1171377001261 putative ADP-binding pocket [chemical binding]; other site 1171377001262 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 1171377001263 Ligand binding site; other site 1171377001264 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 1171377001265 trimer interface [polypeptide binding]; other site 1171377001266 active site 1171377001267 substrate binding site [chemical binding]; other site 1171377001268 CoA binding site [chemical binding]; other site 1171377001269 capsule biosynthesis phosphatase; Region: EcbF-BcbF; TIGR01689 1171377001270 Phosphotransferase enzyme family; Region: APH; pfam01636 1171377001271 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1171377001272 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1171377001273 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1171377001274 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1171377001275 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1171377001276 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1171377001277 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 1171377001278 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1171377001279 metal binding site [ion binding]; metal-binding site 1171377001280 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1171377001281 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1171377001282 DNA binding residues [nucleotide binding] 1171377001283 putative phosphate acyltransferase; Provisional; Region: PRK05331 1171377001284 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1171377001285 hypothetical protein; Provisional; Region: PRK11193 1171377001286 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1171377001287 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 1171377001288 trimer interface [polypeptide binding]; other site 1171377001289 active site 1171377001290 substrate binding site [chemical binding]; other site 1171377001291 CoA binding site [chemical binding]; other site 1171377001292 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1171377001293 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1171377001294 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1171377001295 Na2 binding site [ion binding]; other site 1171377001296 putative substrate binding site 1 [chemical binding]; other site 1171377001297 Na binding site 1 [ion binding]; other site 1171377001298 putative substrate binding site 2 [chemical binding]; other site 1171377001299 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1171377001300 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1171377001301 hexamer interface [polypeptide binding]; other site 1171377001302 ligand binding site [chemical binding]; other site 1171377001303 putative active site [active] 1171377001304 NAD(P) binding site [chemical binding]; other site 1171377001305 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1171377001306 Domain of unknown function DUF21; Region: DUF21; pfam01595 1171377001307 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 1171377001308 Transporter associated domain; Region: CorC_HlyC; smart01091 1171377001309 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1171377001310 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1171377001311 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 1171377001312 active site 1171377001313 trimer interface [polypeptide binding]; other site 1171377001314 dimer interface [polypeptide binding]; other site 1171377001315 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1171377001316 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1171377001317 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1171377001318 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 1171377001319 carboxyltransferase (CT) interaction site; other site 1171377001320 biotinylation site [posttranslational modification]; other site 1171377001321 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1171377001322 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1171377001323 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1171377001324 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1171377001325 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1171377001326 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1171377001327 Predicted membrane protein [Function unknown]; Region: COG2259 1171377001328 Protein of unknown function (DUF692); Region: DUF692; pfam05114 1171377001329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3219 1171377001330 RNA polymerase sigma factor; Provisional; Region: PRK12530 1171377001331 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1171377001332 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 1171377001333 DNA binding residues [nucleotide binding] 1171377001334 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1171377001335 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1171377001336 active site turn [active] 1171377001337 phosphorylation site [posttranslational modification] 1171377001338 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1171377001339 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1171377001340 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 1171377001341 active site 1171377001342 catalytic site [active] 1171377001343 substrate binding site [chemical binding]; other site 1171377001344 hypothetical protein; Provisional; Region: PRK11568 1171377001345 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1171377001346 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1171377001347 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1171377001348 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1171377001349 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1171377001350 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1171377001351 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1171377001352 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 1171377001353 Ligand Binding Site [chemical binding]; other site 1171377001354 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1171377001355 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1171377001356 putative active site [active] 1171377001357 substrate binding site [chemical binding]; other site 1171377001358 putative cosubstrate binding site; other site 1171377001359 catalytic site [active] 1171377001360 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1171377001361 substrate binding site [chemical binding]; other site 1171377001362 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1171377001363 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1171377001364 putative RNA binding site [nucleotide binding]; other site 1171377001365 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 1171377001366 S-adenosylmethionine binding site [chemical binding]; other site 1171377001367 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1171377001368 TrkA-N domain; Region: TrkA_N; pfam02254 1171377001369 TrkA-C domain; Region: TrkA_C; pfam02080 1171377001370 TrkA-N domain; Region: TrkA_N; pfam02254 1171377001371 TrkA-C domain; Region: TrkA_C; pfam02080 1171377001372 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1171377001373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377001374 dimer interface [polypeptide binding]; other site 1171377001375 conserved gate region; other site 1171377001376 putative PBP binding loops; other site 1171377001377 ABC-ATPase subunit interface; other site 1171377001378 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377001379 dimer interface [polypeptide binding]; other site 1171377001380 conserved gate region; other site 1171377001381 putative PBP binding loops; other site 1171377001382 ABC-ATPase subunit interface; other site 1171377001383 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377001384 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 1171377001385 Walker A/P-loop; other site 1171377001386 ATP binding site [chemical binding]; other site 1171377001387 Q-loop/lid; other site 1171377001388 ABC transporter signature motif; other site 1171377001389 Walker B; other site 1171377001390 D-loop; other site 1171377001391 H-loop/switch region; other site 1171377001392 Sporulation related domain; Region: SPOR; pfam05036 1171377001393 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 1171377001394 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1171377001395 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1171377001396 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1171377001397 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1171377001398 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1171377001399 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 1171377001400 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1171377001401 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1171377001402 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 1171377001403 HflK protein; Region: hflK; TIGR01933 1171377001404 FtsH protease regulator HflC; Provisional; Region: PRK11029 1171377001405 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 1171377001406 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1171377001407 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 1171377001408 GDP-binding site [chemical binding]; other site 1171377001409 ACT binding site; other site 1171377001410 IMP binding site; other site 1171377001411 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1171377001412 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1171377001413 heat shock protein HtpX; Provisional; Region: PRK05457 1171377001414 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1171377001415 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1171377001416 active site 1171377001417 HIGH motif; other site 1171377001418 dimer interface [polypeptide binding]; other site 1171377001419 KMSKS motif; other site 1171377001420 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 1171377001421 RNA binding surface [nucleotide binding]; other site 1171377001422 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 1171377001423 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1171377001424 putative dimer interface [polypeptide binding]; other site 1171377001425 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 1171377001426 nucleotide binding site/active site [active] 1171377001427 HIT family signature motif; other site 1171377001428 catalytic residue [active] 1171377001429 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1171377001430 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1171377001431 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1171377001432 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1171377001433 hypothetical protein; Reviewed; Region: PRK01736 1171377001434 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1171377001435 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 1171377001436 FeS/SAM binding site; other site 1171377001437 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1171377001438 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1171377001439 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1171377001440 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1171377001441 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 1171377001442 NAD binding site [chemical binding]; other site 1171377001443 dimerization interface [polypeptide binding]; other site 1171377001444 product binding site; other site 1171377001445 substrate binding site [chemical binding]; other site 1171377001446 zinc binding site [ion binding]; other site 1171377001447 catalytic residues [active] 1171377001448 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1171377001449 Fic/DOC family; Region: Fic; pfam02661 1171377001450 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1171377001451 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1171377001452 Coenzyme A binding pocket [chemical binding]; other site 1171377001453 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1171377001454 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 1171377001455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377001456 homodimer interface [polypeptide binding]; other site 1171377001457 catalytic residue [active] 1171377001458 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1171377001459 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1171377001460 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 1171377001461 active site 1171377001462 motif I; other site 1171377001463 motif II; other site 1171377001464 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1171377001465 putative active site pocket [active] 1171377001466 4-fold oligomerization interface [polypeptide binding]; other site 1171377001467 metal binding residues [ion binding]; metal-binding site 1171377001468 3-fold/trimer interface [polypeptide binding]; other site 1171377001469 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1171377001470 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1171377001471 putative active site [active] 1171377001472 oxyanion strand; other site 1171377001473 catalytic triad [active] 1171377001474 BRO family, N-terminal domain; Region: Bro-N; cl10591 1171377001475 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1171377001476 putative active site [active] 1171377001477 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 1171377001478 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1171377001479 catalytic residues [active] 1171377001480 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 1171377001481 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1171377001482 substrate binding site [chemical binding]; other site 1171377001483 glutamase interaction surface [polypeptide binding]; other site 1171377001484 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1171377001485 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1171377001486 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 1171377001487 metal binding site [ion binding]; metal-binding site 1171377001488 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1171377001489 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1171377001490 trigger factor; Provisional; Region: tig; PRK01490 1171377001491 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1171377001492 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1171377001493 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1171377001494 active site residue [active] 1171377001495 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1171377001496 SecA binding site; other site 1171377001497 Preprotein binding site; other site 1171377001498 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1171377001499 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1171377001500 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1171377001501 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1171377001502 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1171377001503 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 1171377001504 trimer interface [polypeptide binding]; other site 1171377001505 active site 1171377001506 substrate binding site [chemical binding]; other site 1171377001507 CoA binding site [chemical binding]; other site 1171377001508 exoribonuclease R; Provisional; Region: PRK11642 1171377001509 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1171377001510 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1171377001511 RNB domain; Region: RNB; pfam00773 1171377001512 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 1171377001513 RNA binding site [nucleotide binding]; other site 1171377001514 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1171377001515 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1171377001516 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1171377001517 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1171377001518 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1171377001519 AMP binding site [chemical binding]; other site 1171377001520 metal binding site [ion binding]; metal-binding site 1171377001521 active site 1171377001522 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1171377001523 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1171377001524 peptide binding site [polypeptide binding]; other site 1171377001525 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1171377001526 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1171377001527 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1171377001528 G1 box; other site 1171377001529 putative GEF interaction site [polypeptide binding]; other site 1171377001530 GTP/Mg2+ binding site [chemical binding]; other site 1171377001531 Switch I region; other site 1171377001532 G2 box; other site 1171377001533 G3 box; other site 1171377001534 Switch II region; other site 1171377001535 G4 box; other site 1171377001536 G5 box; other site 1171377001537 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 1171377001538 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 1171377001539 recombination protein RecR; Reviewed; Region: recR; PRK00076 1171377001540 RecR protein; Region: RecR; pfam02132 1171377001541 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 1171377001542 putative active site [active] 1171377001543 putative metal-binding site [ion binding]; other site 1171377001544 tetramer interface [polypeptide binding]; other site 1171377001545 hypothetical protein; Validated; Region: PRK00153 1171377001546 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 1171377001547 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1171377001548 trimer interface; other site 1171377001549 sugar binding site [chemical binding]; other site 1171377001550 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1171377001551 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1171377001552 Walker A/P-loop; other site 1171377001553 ATP binding site [chemical binding]; other site 1171377001554 Q-loop/lid; other site 1171377001555 ABC transporter signature motif; other site 1171377001556 Walker B; other site 1171377001557 D-loop; other site 1171377001558 H-loop/switch region; other site 1171377001559 TOBE domain; Region: TOBE_2; pfam08402 1171377001560 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1171377001561 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1171377001562 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377001563 dimer interface [polypeptide binding]; other site 1171377001564 conserved gate region; other site 1171377001565 putative PBP binding loops; other site 1171377001566 ABC-ATPase subunit interface; other site 1171377001567 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1171377001568 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377001569 dimer interface [polypeptide binding]; other site 1171377001570 conserved gate region; other site 1171377001571 putative PBP binding loops; other site 1171377001572 ABC-ATPase subunit interface; other site 1171377001573 alpha-amylase; Reviewed; Region: malS; PRK09505 1171377001574 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1171377001575 active site 1171377001576 catalytic site [active] 1171377001577 transcriptional regulator MalT; Provisional; Region: PRK04841 1171377001578 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 1171377001579 DNA binding residues [nucleotide binding] 1171377001580 dimerization interface [polypeptide binding]; other site 1171377001581 maltodextrin phosphorylase; Provisional; Region: PRK14985 1171377001582 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1171377001583 homodimer interface [polypeptide binding]; other site 1171377001584 active site pocket [active] 1171377001585 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1171377001586 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1171377001587 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1171377001588 ZIP Zinc transporter; Region: Zip; pfam02535 1171377001589 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1171377001590 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1171377001591 aspartate racemase; Region: asp_race; TIGR00035 1171377001592 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1171377001593 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1171377001594 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1171377001595 active site 1171377001596 P-loop; other site 1171377001597 phosphorylation site [posttranslational modification] 1171377001598 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1171377001599 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1171377001600 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1171377001601 putative substrate binding site [chemical binding]; other site 1171377001602 putative ATP binding site [chemical binding]; other site 1171377001603 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK13779 1171377001604 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 1171377001605 active site 1171377001606 phosphorylation site [posttranslational modification] 1171377001607 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 1171377001608 dimerization domain swap beta strand [polypeptide binding]; other site 1171377001609 regulatory protein interface [polypeptide binding]; other site 1171377001610 active site 1171377001611 regulatory phosphorylation site [posttranslational modification]; other site 1171377001612 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 1171377001613 dimerization domain swap beta strand [polypeptide binding]; other site 1171377001614 regulatory protein interface [polypeptide binding]; other site 1171377001615 active site 1171377001616 regulatory phosphorylation site [posttranslational modification]; other site 1171377001617 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 1171377001618 active site 1171377001619 multimer interface [polypeptide binding]; other site 1171377001620 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1171377001621 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1171377001622 active site 1171377001623 HIGH motif; other site 1171377001624 KMSKS motif; other site 1171377001625 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1171377001626 tRNA binding surface [nucleotide binding]; other site 1171377001627 anticodon binding site; other site 1171377001628 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1171377001629 dimer interface [polypeptide binding]; other site 1171377001630 putative tRNA-binding site [nucleotide binding]; other site 1171377001631 disulfide bond formation protein B; Provisional; Region: PRK01749 1171377001632 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1171377001633 fatty acid metabolism regulator; Provisional; Region: PRK04984 1171377001634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1171377001635 DNA-binding site [nucleotide binding]; DNA binding site 1171377001636 FadR C-terminal domain; Region: FadR_C; pfam07840 1171377001637 cell division protein MraZ; Reviewed; Region: PRK00326 1171377001638 MraZ protein; Region: MraZ; pfam02381 1171377001639 MraZ protein; Region: MraZ; pfam02381 1171377001640 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1171377001641 MraW methylase family; Region: Methyltransf_5; pfam01795 1171377001642 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 1171377001643 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1171377001644 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1171377001645 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1171377001646 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1171377001647 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1171377001648 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1171377001649 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1171377001650 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1171377001651 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1171377001652 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1171377001653 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1171377001654 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 1171377001655 Mg++ binding site [ion binding]; other site 1171377001656 putative catalytic motif [active] 1171377001657 putative substrate binding site [chemical binding]; other site 1171377001658 LysE type translocator; Region: LysE; cl00565 1171377001659 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1171377001660 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1171377001661 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1171377001662 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1171377001663 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1171377001664 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1171377001665 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1171377001666 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 1171377001667 active site 1171377001668 homodimer interface [polypeptide binding]; other site 1171377001669 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1171377001670 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1171377001671 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1171377001672 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1171377001673 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1171377001674 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1171377001675 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1171377001676 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1171377001677 Cell division protein FtsQ; Region: FtsQ; pfam03799 1171377001678 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1171377001679 Cell division protein FtsA; Region: FtsA; smart00842 1171377001680 Cell division protein FtsA; Region: FtsA; pfam14450 1171377001681 cell division protein FtsZ; Validated; Region: PRK09330 1171377001682 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 1171377001683 nucleotide binding site [chemical binding]; other site 1171377001684 SulA interaction site; other site 1171377001685 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1171377001686 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1171377001687 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1171377001688 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1171377001689 THF binding site; other site 1171377001690 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 1171377001691 substrate binding site [chemical binding]; other site 1171377001692 THF binding site; other site 1171377001693 zinc-binding site [ion binding]; other site 1171377001694 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1171377001695 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 1171377001696 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1171377001697 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1171377001698 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1171377001699 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1171377001700 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1171377001701 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1171377001702 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1171377001703 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1171377001704 putative protease; Provisional; Region: PRK15452 1171377001705 Peptidase family U32; Region: Peptidase_U32; pfam01136 1171377001706 Ribosomal L15; Region: Ribosomal_L15e; cl02977 1171377001707 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1171377001708 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1171377001709 active site 1171377001710 Riboflavin kinase; Region: Flavokinase; smart00904 1171377001711 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1171377001712 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1171377001713 active site 1171377001714 HIGH motif; other site 1171377001715 nucleotide binding site [chemical binding]; other site 1171377001716 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1171377001717 active site 1171377001718 KMSKS motif; other site 1171377001719 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1171377001720 tRNA binding surface [nucleotide binding]; other site 1171377001721 anticodon binding site; other site 1171377001722 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1171377001723 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1171377001724 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1171377001725 domain interface [polypeptide binding]; other site 1171377001726 putative active site [active] 1171377001727 catalytic site [active] 1171377001728 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1171377001729 domain interface [polypeptide binding]; other site 1171377001730 putative active site [active] 1171377001731 catalytic site [active] 1171377001732 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1171377001733 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 1171377001734 active site 1171377001735 motif I; other site 1171377001736 motif II; other site 1171377001737 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1171377001738 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1171377001739 catalytic residue [active] 1171377001740 aminopeptidase N; Provisional; Region: pepN; PRK14015 1171377001741 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1171377001742 active site 1171377001743 Zn binding site [ion binding]; other site 1171377001744 Protein of unknown function (DUF805); Region: DUF805; cl01224 1171377001745 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1171377001746 G1 box; other site 1171377001747 GTP/Mg2+ binding site [chemical binding]; other site 1171377001748 Switch I region; other site 1171377001749 G2 box; other site 1171377001750 G3 box; other site 1171377001751 Switch II region; other site 1171377001752 G4 box; other site 1171377001753 G5 box; other site 1171377001754 Sialyltransferase PMO188; Region: PM0188; pfam11477 1171377001755 RNase E inhibitor protein; Provisional; Region: PRK11191 1171377001756 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1171377001757 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1171377001758 CPxP motif; other site 1171377001759 proline dipeptidase; Provisional; Region: PRK13607 1171377001760 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1171377001761 active site 1171377001762 argininosuccinate lyase; Provisional; Region: PRK04833 1171377001763 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1171377001764 active sites [active] 1171377001765 tetramer interface [polypeptide binding]; other site 1171377001766 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1171377001767 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 1171377001768 N-terminal plug; other site 1171377001769 ligand-binding site [chemical binding]; other site 1171377001770 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 1171377001771 intersubunit interface [polypeptide binding]; other site 1171377001772 CTP synthetase; Validated; Region: pyrG; PRK05380 1171377001773 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 1171377001774 Catalytic site [active] 1171377001775 active site 1171377001776 UTP binding site [chemical binding]; other site 1171377001777 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1171377001778 active site 1171377001779 putative oxyanion hole; other site 1171377001780 catalytic triad [active] 1171377001781 Uncharacterized integral membrane protein (DUF2301); Region: DUF2301; cl02241 1171377001782 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1171377001783 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1171377001784 nucleotide binding pocket [chemical binding]; other site 1171377001785 K-X-D-G motif; other site 1171377001786 catalytic site [active] 1171377001787 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1171377001788 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1171377001789 Dimer interface [polypeptide binding]; other site 1171377001790 BRCT sequence motif; other site 1171377001791 cell division protein ZipA; Provisional; Region: PRK01741 1171377001792 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1171377001793 FtsZ protein binding site [polypeptide binding]; other site 1171377001794 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1171377001795 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1171377001796 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1171377001797 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1171377001798 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1171377001799 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 1171377001800 putative active site [active] 1171377001801 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1171377001802 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1171377001803 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1171377001804 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1171377001805 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 1171377001806 active site 1171377001807 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1171377001808 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 1171377001809 dimer interface [polypeptide binding]; other site 1171377001810 ADP-ribose binding site [chemical binding]; other site 1171377001811 active site 1171377001812 nudix motif; other site 1171377001813 metal binding site [ion binding]; metal-binding site 1171377001814 formate transporter FocA; Region: formate_focA; TIGR04060 1171377001815 Pyruvate formate lyase 1; Region: PFL1; cd01678 1171377001816 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1171377001817 coenzyme A binding site [chemical binding]; other site 1171377001818 active site 1171377001819 catalytic residues [active] 1171377001820 glycine loop; other site 1171377001821 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 1171377001822 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 1171377001823 FeS/SAM binding site; other site 1171377001824 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1171377001825 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 1171377001826 FeS/SAM binding site; other site 1171377001827 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1171377001828 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1171377001829 putative catalytic cysteine [active] 1171377001830 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1171377001831 putative active site [active] 1171377001832 metal binding site [ion binding]; metal-binding site 1171377001833 oligopeptidase A; Provisional; Region: PRK10911 1171377001834 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1171377001835 active site 1171377001836 Zn binding site [ion binding]; other site 1171377001837 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1171377001838 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1171377001839 CoA-ligase; Region: Ligase_CoA; pfam00549 1171377001840 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1171377001841 CoA binding domain; Region: CoA_binding; smart00881 1171377001842 CoA-ligase; Region: Ligase_CoA; pfam00549 1171377001843 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1171377001844 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 1171377001845 active site 1171377001846 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1171377001847 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1171377001848 Prephenate dehydratase; Region: PDT; pfam00800 1171377001849 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 1171377001850 putative L-Phe binding site [chemical binding]; other site 1171377001851 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1171377001852 pseudouridine synthase; Region: TIGR00093 1171377001853 active site 1171377001854 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1171377001855 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1171377001856 NAD binding site [chemical binding]; other site 1171377001857 homodimer interface [polypeptide binding]; other site 1171377001858 active site 1171377001859 substrate binding site [chemical binding]; other site 1171377001860 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1171377001861 AmpG-like permease; Region: 2A0125; TIGR00901 1171377001862 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1171377001863 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1171377001864 Walker A/P-loop; other site 1171377001865 ATP binding site [chemical binding]; other site 1171377001866 Q-loop/lid; other site 1171377001867 ABC transporter signature motif; other site 1171377001868 Walker B; other site 1171377001869 D-loop; other site 1171377001870 H-loop/switch region; other site 1171377001871 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 1171377001872 ABC-ATPase subunit interface; other site 1171377001873 dimer interface [polypeptide binding]; other site 1171377001874 putative PBP binding regions; other site 1171377001875 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1171377001876 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 1171377001877 ABC-ATPase subunit interface; other site 1171377001878 dimer interface [polypeptide binding]; other site 1171377001879 putative PBP binding regions; other site 1171377001880 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 1171377001881 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1171377001882 putative ligand binding residues [chemical binding]; other site 1171377001883 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 1171377001884 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1171377001885 N-terminal plug; other site 1171377001886 ligand-binding site [chemical binding]; other site 1171377001887 adenylate kinase; Reviewed; Region: adk; PRK00279 1171377001888 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 1171377001889 AMP-binding site [chemical binding]; other site 1171377001890 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1171377001891 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1171377001892 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1171377001893 Walker A/P-loop; other site 1171377001894 ATP binding site [chemical binding]; other site 1171377001895 Q-loop/lid; other site 1171377001896 ABC transporter signature motif; other site 1171377001897 Walker B; other site 1171377001898 D-loop; other site 1171377001899 H-loop/switch region; other site 1171377001900 TOBE domain; Region: TOBE_2; pfam08402 1171377001901 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1171377001902 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377001903 dimer interface [polypeptide binding]; other site 1171377001904 conserved gate region; other site 1171377001905 putative PBP binding loops; other site 1171377001906 ABC-ATPase subunit interface; other site 1171377001907 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377001908 dimer interface [polypeptide binding]; other site 1171377001909 conserved gate region; other site 1171377001910 putative PBP binding loops; other site 1171377001911 ABC-ATPase subunit interface; other site 1171377001912 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1171377001913 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1171377001914 primosome assembly protein PriA; Validated; Region: PRK05580 1171377001915 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 1171377001916 ATP binding site [chemical binding]; other site 1171377001917 putative Mg++ binding site [ion binding]; other site 1171377001918 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1171377001919 ATP-binding site [chemical binding]; other site 1171377001920 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1171377001921 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1171377001922 aminotransferase AlaT; Validated; Region: PRK09265 1171377001923 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 1171377001924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377001925 homodimer interface [polypeptide binding]; other site 1171377001926 catalytic residue [active] 1171377001927 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1171377001928 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1171377001929 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1171377001930 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1171377001931 transmembrane helices; other site 1171377001932 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1171377001933 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377001934 Walker A/P-loop; other site 1171377001935 ATP binding site [chemical binding]; other site 1171377001936 Q-loop/lid; other site 1171377001937 ABC transporter signature motif; other site 1171377001938 Walker B; other site 1171377001939 D-loop; other site 1171377001940 H-loop/switch region; other site 1171377001941 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1171377001942 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 1171377001943 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1171377001944 activation loop (A-loop); other site 1171377001945 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1171377001946 Coenzyme A binding pocket [chemical binding]; other site 1171377001947 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1171377001948 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377001949 Walker A/P-loop; other site 1171377001950 ATP binding site [chemical binding]; other site 1171377001951 Q-loop/lid; other site 1171377001952 ABC transporter signature motif; other site 1171377001953 Walker B; other site 1171377001954 D-loop; other site 1171377001955 H-loop/switch region; other site 1171377001956 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1171377001957 dipeptide transporter; Provisional; Region: PRK10913 1171377001958 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1171377001959 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377001960 dimer interface [polypeptide binding]; other site 1171377001961 conserved gate region; other site 1171377001962 putative PBP binding loops; other site 1171377001963 ABC-ATPase subunit interface; other site 1171377001964 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1171377001965 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377001966 dimer interface [polypeptide binding]; other site 1171377001967 conserved gate region; other site 1171377001968 putative PBP binding loops; other site 1171377001969 ABC-ATPase subunit interface; other site 1171377001970 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1171377001971 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1171377001972 peptide binding site [polypeptide binding]; other site 1171377001973 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1171377001974 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1171377001975 peptide binding site [polypeptide binding]; other site 1171377001976 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1171377001977 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 1171377001978 FMN binding site [chemical binding]; other site 1171377001979 active site 1171377001980 catalytic residues [active] 1171377001981 substrate binding site [chemical binding]; other site 1171377001982 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1171377001983 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1171377001984 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1171377001985 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1171377001986 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 1171377001987 E3 interaction surface; other site 1171377001988 lipoyl attachment site [posttranslational modification]; other site 1171377001989 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1171377001990 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1171377001991 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1171377001992 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1171377001993 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1171377001994 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1171377001995 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1171377001996 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 1171377001997 FAD binding pocket [chemical binding]; other site 1171377001998 FAD binding motif [chemical binding]; other site 1171377001999 phosphate binding motif [ion binding]; other site 1171377002000 beta-alpha-beta structure motif; other site 1171377002001 NAD binding pocket [chemical binding]; other site 1171377002002 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1171377002003 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1171377002004 active site 1171377002005 NTP binding site [chemical binding]; other site 1171377002006 metal binding triad [ion binding]; metal-binding site 1171377002007 antibiotic binding site [chemical binding]; other site 1171377002008 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1171377002009 ApbE family; Region: ApbE; pfam02424 1171377002010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1171377002011 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1171377002012 active site 1 [active] 1171377002013 dimer interface [polypeptide binding]; other site 1171377002014 hexamer interface [polypeptide binding]; other site 1171377002015 active site 2 [active] 1171377002016 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1171377002017 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1171377002018 active site 1171377002019 NTP binding site [chemical binding]; other site 1171377002020 metal binding triad [ion binding]; metal-binding site 1171377002021 antibiotic binding site [chemical binding]; other site 1171377002022 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1171377002023 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 1171377002024 Ligand Binding Site [chemical binding]; other site 1171377002025 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1171377002026 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1171377002027 Walker A/P-loop; other site 1171377002028 ATP binding site [chemical binding]; other site 1171377002029 Q-loop/lid; other site 1171377002030 ABC transporter signature motif; other site 1171377002031 Walker B; other site 1171377002032 D-loop; other site 1171377002033 H-loop/switch region; other site 1171377002034 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1171377002035 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 1171377002036 ABC-ATPase subunit interface; other site 1171377002037 dimer interface [polypeptide binding]; other site 1171377002038 putative PBP binding regions; other site 1171377002039 Acylphosphatase; Region: Acylphosphatase; cl00551 1171377002040 electron transport complex protein RsxA; Provisional; Region: PRK05151 1171377002041 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 1171377002042 Putative Fe-S cluster; Region: FeS; cl17515 1171377002043 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1171377002044 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1171377002045 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 1171377002046 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1171377002047 SLBB domain; Region: SLBB; pfam10531 1171377002048 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1171377002049 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 1171377002050 putative deacylase active site [active] 1171377002051 Predicted membrane protein [Function unknown]; Region: COG2860 1171377002052 UPF0126 domain; Region: UPF0126; pfam03458 1171377002053 UPF0126 domain; Region: UPF0126; pfam03458 1171377002054 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1171377002055 electron transport complex protein RnfG; Validated; Region: PRK01908 1171377002056 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1171377002057 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1171377002058 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1171377002059 putative acyl-acceptor binding pocket; other site 1171377002060 UGMP family protein; Validated; Region: PRK09604 1171377002061 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1171377002062 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1171377002063 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1171377002064 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 1171377002065 RNA binding surface [nucleotide binding]; other site 1171377002066 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1171377002067 active site 1171377002068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1171377002069 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1171377002070 NAD(P) binding site [chemical binding]; other site 1171377002071 active site 1171377002072 arginine repressor; Provisional; Region: PRK05066 1171377002073 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1171377002074 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1171377002075 malate dehydrogenase; Provisional; Region: PRK05086 1171377002076 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1171377002077 NAD binding site [chemical binding]; other site 1171377002078 dimerization interface [polypeptide binding]; other site 1171377002079 Substrate binding site [chemical binding]; other site 1171377002080 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 1171377002081 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1171377002082 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 1171377002083 thioredoxin reductase; Provisional; Region: PRK10262 1171377002084 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1171377002085 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1171377002086 ProQ/FINO family; Region: ProQ; pfam04352 1171377002087 ProP expression regulator; Provisional; Region: PRK04950 1171377002088 carboxy-terminal protease; Provisional; Region: PRK11186 1171377002089 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1171377002090 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1171377002091 protein binding site [polypeptide binding]; other site 1171377002092 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1171377002093 Catalytic dyad [active] 1171377002094 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1171377002095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1171377002096 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1171377002097 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1171377002098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1171377002099 Peptidase M15; Region: Peptidase_M15_3; cl01194 1171377002100 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1171377002101 VacJ like lipoprotein; Region: VacJ; cl01073 1171377002102 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1171377002103 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1171377002104 Ligand binding site; other site 1171377002105 oligomer interface; other site 1171377002106 Protein of unknown function, DUF462; Region: DUF462; cl01190 1171377002107 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 1171377002108 putative FMN binding site [chemical binding]; other site 1171377002109 protease 4; Provisional; Region: PRK10949 1171377002110 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1171377002111 tandem repeat interface [polypeptide binding]; other site 1171377002112 oligomer interface [polypeptide binding]; other site 1171377002113 active site residues [active] 1171377002114 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1171377002115 tandem repeat interface [polypeptide binding]; other site 1171377002116 oligomer interface [polypeptide binding]; other site 1171377002117 active site residues [active] 1171377002118 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1171377002119 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1171377002120 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1171377002121 GIY-YIG motif/motif A; other site 1171377002122 active site 1171377002123 catalytic site [active] 1171377002124 putative DNA binding site [nucleotide binding]; other site 1171377002125 metal binding site [ion binding]; metal-binding site 1171377002126 UvrB/uvrC motif; Region: UVR; pfam02151 1171377002127 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1171377002128 Helix-hairpin-helix motif; Region: HHH; pfam00633 1171377002129 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1171377002130 metal binding site [ion binding]; metal-binding site 1171377002131 Uncharacterized integral membrane protein [Function unknown]; Region: COG3739 1171377002132 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 1171377002133 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1171377002134 DXD motif; other site 1171377002135 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 1171377002136 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 1171377002137 putative active site [active] 1171377002138 putative metal binding site [ion binding]; other site 1171377002139 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 1171377002140 acetylornithine aminotransferase; Provisional; Region: PRK02627 1171377002141 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 1171377002142 inhibitor-cofactor binding pocket; inhibition site 1171377002143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377002144 catalytic residue [active] 1171377002145 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1171377002146 homohexameric interface [polypeptide binding]; other site 1171377002147 feedback inhibition sensing region; other site 1171377002148 nucleotide binding site [chemical binding]; other site 1171377002149 N-acetyl-L-glutamate binding site [chemical binding]; other site 1171377002150 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 1171377002151 heterotetramer interface [polypeptide binding]; other site 1171377002152 active site pocket [active] 1171377002153 cleavage site 1171377002154 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1171377002155 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1171377002156 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1171377002157 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1171377002158 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1171377002159 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 1171377002160 S-adenosylmethionine binding site [chemical binding]; other site 1171377002161 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1171377002162 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1171377002163 Part of AAA domain; Region: AAA_19; pfam13245 1171377002164 Family description; Region: UvrD_C_2; pfam13538 1171377002165 Src homology 2 (SH2) domain; Region: SH2; cl15255 1171377002166 phosphotyrosine binding pocket [polypeptide binding]; other site 1171377002167 hydrophobic binding pocket [polypeptide binding]; other site 1171377002168 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377002169 trimer interface [polypeptide binding]; other site 1171377002170 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377002171 trimer interface [polypeptide binding]; other site 1171377002172 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377002173 trimer interface [polypeptide binding]; other site 1171377002174 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1171377002175 trimer interface [polypeptide binding]; other site 1171377002176 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1171377002177 Haemagglutinin; Region: HIM; pfam05662 1171377002178 YadA-like C-terminal region; Region: YadA; pfam03895 1171377002179 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1171377002180 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1171377002181 ligand binding site [chemical binding]; other site 1171377002182 glycine radical enzyme, YjjI family; Region: glycyl_YjjI; TIGR04040 1171377002183 Pyruvate formate lyase; Region: PFL; pfam02901 1171377002184 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1171377002185 Pleckstrin homology-like domain; Region: PH-like; cl17171 1171377002186 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 1171377002187 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 1171377002188 FeS/SAM binding site; other site 1171377002189 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1171377002190 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1171377002191 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1171377002192 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1171377002193 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1171377002194 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1171377002195 active site residue [active] 1171377002196 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1171377002197 putative inner membrane peptidase; Provisional; Region: PRK11778 1171377002198 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1171377002199 tandem repeat interface [polypeptide binding]; other site 1171377002200 oligomer interface [polypeptide binding]; other site 1171377002201 active site residues [active] 1171377002202 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1171377002203 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 1171377002204 FMN binding site [chemical binding]; other site 1171377002205 active site 1171377002206 catalytic residues [active] 1171377002207 substrate binding site [chemical binding]; other site 1171377002208 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1171377002209 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1171377002210 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1171377002211 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 1171377002212 TPP-binding site; other site 1171377002213 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 1171377002214 PYR/PP interface [polypeptide binding]; other site 1171377002215 dimer interface [polypeptide binding]; other site 1171377002216 TPP binding site [chemical binding]; other site 1171377002217 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1171377002218 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1171377002219 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 1171377002220 active site 1171377002221 dimerization interface [polypeptide binding]; other site 1171377002222 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1171377002223 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1171377002224 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1171377002225 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1171377002226 nucleophilic elbow; other site 1171377002227 catalytic triad; other site 1171377002228 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 1171377002229 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1171377002230 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 1171377002231 Walker A motif; other site 1171377002232 ATP binding site [chemical binding]; other site 1171377002233 Walker B motif; other site 1171377002234 arginine finger; other site 1171377002235 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1171377002236 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1171377002237 RuvA N terminal domain; Region: RuvA_N; pfam01330 1171377002238 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1171377002239 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1171377002240 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1171377002241 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377002242 dimer interface [polypeptide binding]; other site 1171377002243 conserved gate region; other site 1171377002244 putative PBP binding loops; other site 1171377002245 ABC-ATPase subunit interface; other site 1171377002246 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377002247 dimer interface [polypeptide binding]; other site 1171377002248 conserved gate region; other site 1171377002249 putative PBP binding loops; other site 1171377002250 ABC-ATPase subunit interface; other site 1171377002251 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1171377002252 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1171377002253 Walker A/P-loop; other site 1171377002254 ATP binding site [chemical binding]; other site 1171377002255 Q-loop/lid; other site 1171377002256 ABC transporter signature motif; other site 1171377002257 Walker B; other site 1171377002258 D-loop; other site 1171377002259 H-loop/switch region; other site 1171377002260 TOBE domain; Region: TOBE_2; pfam08402 1171377002261 TonB-dependent lactoferrin and transferrin receptors; Region: TonB-tbp-lbp; TIGR01776 1171377002262 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 1171377002263 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 1171377002264 ligand-binding site [chemical binding]; other site 1171377002265 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1171377002266 ribonuclease T; Provisional; Region: PRK05168 1171377002267 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1171377002268 active site 1171377002269 catalytic site [active] 1171377002270 substrate binding site [chemical binding]; other site 1171377002271 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1171377002272 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1171377002273 dimer interface [polypeptide binding]; other site 1171377002274 active site 1171377002275 glutathione binding site [chemical binding]; other site 1171377002276 Dicarboxylate transport; Region: DctA-YdbH; cl14674 1171377002277 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1171377002278 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1171377002279 trimer interface [polypeptide binding]; other site 1171377002280 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1171377002281 trimer interface [polypeptide binding]; other site 1171377002282 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377002283 trimer interface [polypeptide binding]; other site 1171377002284 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377002285 trimer interface [polypeptide binding]; other site 1171377002286 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377002287 trimer interface [polypeptide binding]; other site 1171377002288 YadA-like C-terminal region; Region: YadA; pfam03895 1171377002289 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1171377002290 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377002291 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377002292 ABC transporter; Region: ABC_tran_2; pfam12848 1171377002293 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377002294 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 1171377002295 putative GSH binding site [chemical binding]; other site 1171377002296 catalytic residues [active] 1171377002297 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1171377002298 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1171377002299 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 1171377002300 S-adenosylmethionine binding site [chemical binding]; other site 1171377002301 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 1171377002302 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1171377002303 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1171377002304 Coenzyme A binding pocket [chemical binding]; other site 1171377002305 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1171377002306 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 1171377002307 ATP binding site [chemical binding]; other site 1171377002308 Mg++ binding site [ion binding]; other site 1171377002309 motif III; other site 1171377002310 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 1171377002311 nucleotide binding region [chemical binding]; other site 1171377002312 ATP-binding site [chemical binding]; other site 1171377002313 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1171377002314 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 1171377002315 active site 1171377002316 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 1171377002317 putative active site [active] 1171377002318 catalytic residue [active] 1171377002319 GTP-binding protein YchF; Reviewed; Region: PRK09601 1171377002320 YchF GTPase; Region: YchF; cd01900 1171377002321 G1 box; other site 1171377002322 GTP/Mg2+ binding site [chemical binding]; other site 1171377002323 Switch I region; other site 1171377002324 G2 box; other site 1171377002325 Switch II region; other site 1171377002326 G3 box; other site 1171377002327 G4 box; other site 1171377002328 G5 box; other site 1171377002329 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 1171377002330 YwiC-like protein; Region: YwiC; pfam14256 1171377002331 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1171377002332 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377002333 Walker A/P-loop; other site 1171377002334 ATP binding site [chemical binding]; other site 1171377002335 Q-loop/lid; other site 1171377002336 ABC transporter signature motif; other site 1171377002337 Walker B; other site 1171377002338 D-loop; other site 1171377002339 H-loop/switch region; other site 1171377002340 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1171377002341 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377002342 Walker A/P-loop; other site 1171377002343 ATP binding site [chemical binding]; other site 1171377002344 Q-loop/lid; other site 1171377002345 ABC transporter signature motif; other site 1171377002346 Walker B; other site 1171377002347 D-loop; other site 1171377002348 H-loop/switch region; other site 1171377002349 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1171377002350 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1171377002351 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377002352 dimer interface [polypeptide binding]; other site 1171377002353 conserved gate region; other site 1171377002354 putative PBP binding loops; other site 1171377002355 ABC-ATPase subunit interface; other site 1171377002356 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1171377002357 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_3; cd08490 1171377002358 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1171377002359 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1171377002360 dimerization interface [polypeptide binding]; other site 1171377002361 active site 1171377002362 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1171377002363 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 1171377002364 non-specific DNA binding site [nucleotide binding]; other site 1171377002365 salt bridge; other site 1171377002366 sequence-specific DNA binding site [nucleotide binding]; other site 1171377002367 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1171377002368 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1171377002369 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1171377002370 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1171377002371 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1171377002372 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 1171377002373 dimer interface [polypeptide binding]; other site 1171377002374 motif 1; other site 1171377002375 active site 1171377002376 motif 2; other site 1171377002377 motif 3; other site 1171377002378 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 1171377002379 anticodon binding site; other site 1171377002380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1171377002381 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1171377002382 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1171377002383 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 1171377002384 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1171377002385 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1171377002386 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1171377002387 Walker A/P-loop; other site 1171377002388 ATP binding site [chemical binding]; other site 1171377002389 Q-loop/lid; other site 1171377002390 ABC transporter signature motif; other site 1171377002391 Walker B; other site 1171377002392 D-loop; other site 1171377002393 H-loop/switch region; other site 1171377002394 heme exporter protein CcmB; Region: ccmB; TIGR01190 1171377002395 heme exporter protein CcmC; Region: ccmC; TIGR01191 1171377002396 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1171377002397 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1171377002398 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1171377002399 transmembrane helices; other site 1171377002400 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1171377002401 Phosphoglycerate kinase; Region: PGK; pfam00162 1171377002402 substrate binding site [chemical binding]; other site 1171377002403 hinge regions; other site 1171377002404 ADP binding site [chemical binding]; other site 1171377002405 catalytic site [active] 1171377002406 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1171377002407 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1171377002408 active site 1171377002409 intersubunit interface [polypeptide binding]; other site 1171377002410 zinc binding site [ion binding]; other site 1171377002411 Na+ binding site [ion binding]; other site 1171377002412 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 1171377002413 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1171377002414 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377002415 Walker A/P-loop; other site 1171377002416 ATP binding site [chemical binding]; other site 1171377002417 Q-loop/lid; other site 1171377002418 ABC transporter signature motif; other site 1171377002419 Walker B; other site 1171377002420 D-loop; other site 1171377002421 H-loop/switch region; other site 1171377002422 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1171377002423 Nitroreductase-like family 1. 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_1; cd02137 1171377002424 dimer interface [polypeptide binding]; other site 1171377002425 FMN binding site [chemical binding]; other site 1171377002426 hypothetical protein; Provisional; Region: PRK05208 1171377002427 glutathione reductase; Validated; Region: PRK06116 1171377002428 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1171377002429 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1171377002430 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1171377002431 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1171377002432 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 1171377002433 FeS/SAM binding site; other site 1171377002434 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1171377002435 active site 1171377002436 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1171377002437 Ligand Binding Site [chemical binding]; other site 1171377002438 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 1171377002439 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 1171377002440 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1171377002441 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1171377002442 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1171377002443 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1171377002444 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 1171377002445 putative NAD(P) binding site [chemical binding]; other site 1171377002446 active site 1171377002447 Glucitol operon activator protein (GutM); Region: GutM; cl01890 1171377002448 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1171377002449 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 1171377002450 motif II; other site 1171377002451 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1171377002452 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1171377002453 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1171377002454 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1171377002455 imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; Region: IMP_synth_hisH; TIGR01855 1171377002456 predicted active site [active] 1171377002457 catalytic triad [active] 1171377002458 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1171377002459 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1171377002460 active site 1171377002461 multimer interface [polypeptide binding]; other site 1171377002462 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1171377002463 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1171377002464 DNA-binding site [nucleotide binding]; DNA binding site 1171377002465 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 1171377002466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377002467 homodimer interface [polypeptide binding]; other site 1171377002468 catalytic residue [active] 1171377002469 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 1171377002470 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 1171377002471 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 1171377002472 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; cl00083 1171377002473 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1171377002474 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 1171377002475 active site 1171377002476 phosphorylation site [posttranslational modification] 1171377002477 intermolecular recognition site; other site 1171377002478 dimerization interface [polypeptide binding]; other site 1171377002479 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 1171377002480 DNA binding residues [nucleotide binding] 1171377002481 dimerization interface [polypeptide binding]; other site 1171377002482 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1171377002483 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 1171377002484 dimer interface [polypeptide binding]; other site 1171377002485 phosphorylation site [posttranslational modification] 1171377002486 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 1171377002487 ATP binding site [chemical binding]; other site 1171377002488 Mg2+ binding site [ion binding]; other site 1171377002489 G-X-G motif; other site 1171377002490 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 1171377002491 sequence-specific DNA binding site [nucleotide binding]; other site 1171377002492 salt bridge; other site 1171377002493 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1171377002494 4Fe-4S binding domain; Region: Fer4; pfam00037 1171377002495 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1171377002496 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1171377002497 AAA domain; Region: AAA_14; pfam13173 1171377002498 tetrathionate reductase subunit A; Provisional; Region: PRK14991 1171377002499 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 1171377002500 molybdopterin cofactor binding site; other site 1171377002501 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 1171377002502 putative molybdopterin cofactor binding site [chemical binding]; other site 1171377002503 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 1171377002504 putative molybdopterin cofactor binding site; other site 1171377002505 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1171377002506 putative transposase OrfB; Reviewed; Region: PHA02517 1171377002507 HTH-like domain; Region: HTH_21; pfam13276 1171377002508 Integrase core domain; Region: rve; pfam00665 1171377002509 Integrase core domain; Region: rve_2; pfam13333 1171377002510 helix-turn-helix, Psq domain; Region: HTH_psq; pfam05225 1171377002511 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1171377002512 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1171377002513 metal binding site [ion binding]; metal-binding site 1171377002514 dimer interface [polypeptide binding]; other site 1171377002515 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1171377002516 active site 1171377002517 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1171377002518 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 1171377002519 catalytic site [active] 1171377002520 G-X2-G-X-G-K; other site 1171377002521 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1171377002522 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1171377002523 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1171377002524 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1171377002525 Ligand Binding Site [chemical binding]; other site 1171377002526 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1171377002527 active site residue [active] 1171377002528 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1171377002529 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1171377002530 active site 1171377002531 ADP/pyrophosphate binding site [chemical binding]; other site 1171377002532 dimerization interface [polypeptide binding]; other site 1171377002533 allosteric effector site; other site 1171377002534 fructose-1,6-bisphosphate binding site; other site 1171377002535 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1171377002536 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1171377002537 putative NAD(P) binding site [chemical binding]; other site 1171377002538 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1171377002539 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 1171377002540 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1171377002541 catalytic residue [active] 1171377002542 Staphylococcal nuclease homologues; Region: SNc; smart00318 1171377002543 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1171377002544 Catalytic site; other site 1171377002545 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1171377002546 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1171377002547 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1171377002548 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1171377002549 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1171377002550 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1171377002551 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 1171377002552 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 1171377002553 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1171377002554 Protein of unknown function, DUF596; Region: DUF596; cl10492 1171377002555 putative inner membrane protein; Provisional; Region: PRK11099 1171377002556 Sulphur transport; Region: Sulf_transp; pfam04143 1171377002557 hypothetical protein; Provisional; Region: PRK11018 1171377002558 CPxP motif; other site 1171377002559 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1171377002560 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1171377002561 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1171377002562 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1171377002563 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1171377002564 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1171377002565 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1171377002566 Protein of unknown function (DUF465); Region: DUF465; cl01070 1171377002567 trehalose repressor; Provisional; Region: treR; PRK09492 1171377002568 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1171377002569 DNA binding site [nucleotide binding] 1171377002570 domain linker motif; other site 1171377002571 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 1171377002572 dimerization interface [polypeptide binding]; other site 1171377002573 ligand binding site [chemical binding]; other site 1171377002574 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1171377002575 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 1171377002576 ring oligomerisation interface [polypeptide binding]; other site 1171377002577 ATP/Mg binding site [chemical binding]; other site 1171377002578 stacking interactions; other site 1171377002579 hinge regions; other site 1171377002580 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 1171377002581 oligomerisation interface [polypeptide binding]; other site 1171377002582 mobile loop; other site 1171377002583 roof hairpin; other site 1171377002584 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1171377002585 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1171377002586 Predicted flavoproteins [General function prediction only]; Region: COG2081 1171377002587 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1171377002588 recombination and repair protein; Provisional; Region: PRK10869 1171377002589 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1171377002590 Walker A/P-loop; other site 1171377002591 ATP binding site [chemical binding]; other site 1171377002592 Q-loop/lid; other site 1171377002593 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1171377002594 Q-loop/lid; other site 1171377002595 ABC transporter signature motif; other site 1171377002596 Walker B; other site 1171377002597 D-loop; other site 1171377002598 H-loop/switch region; other site 1171377002599 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 1171377002600 putative DNA-binding cleft [nucleotide binding]; other site 1171377002601 putative DNA clevage site; other site 1171377002602 molecular lever; other site 1171377002603 beta-hexosaminidase; Provisional; Region: PRK05337 1171377002604 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1171377002605 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 1171377002606 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1171377002607 amino acid carrier protein; Region: agcS; TIGR00835 1171377002608 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1171377002609 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 1171377002610 domain interfaces; other site 1171377002611 active site 1171377002612 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1171377002613 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 1171377002614 active site 1171377002615 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1171377002616 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1171377002617 HemY protein N-terminus; Region: HemY_N; pfam07219 1171377002618 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1171377002619 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1171377002620 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 1171377002621 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1171377002622 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 1171377002623 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 1171377002624 active site 1171377002625 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1171377002626 colicin uptake protein TolR; Provisional; Region: PRK11024 1171377002627 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1171377002628 TolA C-terminal; Region: TolA; pfam06519 1171377002629 translocation protein TolB; Provisional; Region: tolB; PRK01742 1171377002630 TolB amino-terminal domain; Region: TolB_N; pfam04052 1171377002631 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1171377002632 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1171377002633 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1171377002634 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1171377002635 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1171377002636 ligand binding site [chemical binding]; other site 1171377002637 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1171377002638 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1171377002639 putative metal binding site [ion binding]; other site 1171377002640 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 1171377002641 HSP70 interaction site [polypeptide binding]; other site 1171377002642 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1171377002643 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 1171377002644 FMN binding site [chemical binding]; other site 1171377002645 active site 1171377002646 catalytic residues [active] 1171377002647 substrate binding site [chemical binding]; other site 1171377002648 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1171377002649 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1171377002650 active site 1171377002651 NTP binding site [chemical binding]; other site 1171377002652 metal binding triad [ion binding]; metal-binding site 1171377002653 antibiotic binding site [chemical binding]; other site 1171377002654 hypothetical protein; Provisional; Region: PRK05415 1171377002655 Domain of unknown function (DUF697); Region: DUF697; cl12064 1171377002656 LemA family; Region: LemA; cl00742 1171377002657 Repair protein; Region: Repair_PSII; cl01535 1171377002658 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1171377002659 Repair protein; Region: Repair_PSII; pfam04536 1171377002660 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1171377002661 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1171377002662 active site 1171377002663 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377002664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377002665 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 1171377002666 dimerization interface [polypeptide binding]; other site 1171377002667 Coenzyme A transferase; Region: CoA_trans; cl17247 1171377002668 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1171377002669 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 1171377002670 putative acyltransferase; Provisional; Region: PRK05790 1171377002671 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 1171377002672 dimer interface [polypeptide binding]; other site 1171377002673 active site 1171377002674 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1171377002675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1171377002676 NAD(P) binding site [chemical binding]; other site 1171377002677 active site 1171377002678 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1171377002679 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1171377002680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377002681 Walker A/P-loop; other site 1171377002682 ATP binding site [chemical binding]; other site 1171377002683 Q-loop/lid; other site 1171377002684 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377002685 ABC transporter; Region: ABC_tran_2; pfam12848 1171377002686 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377002687 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1171377002688 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 1171377002689 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1171377002690 dimer interface [polypeptide binding]; other site 1171377002691 putative functional site; other site 1171377002692 putative MPT binding site; other site 1171377002693 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1171377002694 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 1171377002695 ATP binding site [chemical binding]; other site 1171377002696 substrate interface [chemical binding]; other site 1171377002697 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1171377002698 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 1171377002699 active site 1171377002700 ribulose/triose binding site [chemical binding]; other site 1171377002701 phosphate binding site [ion binding]; other site 1171377002702 substrate (anthranilate) binding pocket [chemical binding]; other site 1171377002703 product (indole) binding pocket [chemical binding]; other site 1171377002704 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 1171377002705 active site 1171377002706 tRNA pseudouridine synthase C; Region: DUF446; cl01187 1171377002707 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1171377002708 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1171377002709 probable active site [active] 1171377002710 hypothetical protein; Provisional; Region: PRK05114 1171377002711 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1171377002712 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1171377002713 putative active site [active] 1171377002714 putative metal binding residues [ion binding]; other site 1171377002715 signature motif; other site 1171377002716 putative triphosphate binding site [ion binding]; other site 1171377002717 YcjX-like family, DUF463; Region: DUF463; pfam04317 1171377002718 alanine racemase; Reviewed; Region: alr; PRK00053 1171377002719 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1171377002720 active site 1171377002721 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1171377002722 substrate binding site [chemical binding]; other site 1171377002723 catalytic residues [active] 1171377002724 dimer interface [polypeptide binding]; other site 1171377002725 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1171377002726 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 1171377002727 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1171377002728 Helicase associated domain (HA2); Region: HA2; pfam04408 1171377002729 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1171377002730 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1171377002731 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1171377002732 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 1171377002733 ATP binding site [chemical binding]; other site 1171377002734 putative Mg++ binding site [ion binding]; other site 1171377002735 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 1171377002736 nucleotide binding region [chemical binding]; other site 1171377002737 ATP-binding site [chemical binding]; other site 1171377002738 Predicted membrane protein [Function unknown]; Region: COG2707 1171377002739 GrpE; Region: GrpE; pfam01025 1171377002740 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 1171377002741 dimer interface [polypeptide binding]; other site 1171377002742 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1171377002743 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1171377002744 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 1171377002745 dimer interface [polypeptide binding]; other site 1171377002746 anticodon binding site; other site 1171377002747 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1171377002748 homodimer interface [polypeptide binding]; other site 1171377002749 motif 1; other site 1171377002750 active site 1171377002751 motif 2; other site 1171377002752 GAD domain; Region: GAD; pfam02938 1171377002753 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 1171377002754 active site 1171377002755 motif 3; other site 1171377002756 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1171377002757 glutaminase; Provisional; Region: PRK00971 1171377002758 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 1171377002759 30S subunit binding site; other site 1171377002760 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1171377002761 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1171377002762 putative acyl-acceptor binding pocket; other site 1171377002763 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 1171377002764 active site 1171377002765 dimerization interface [polypeptide binding]; other site 1171377002766 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1171377002767 hypothetical protein; Provisional; Region: PRK05170 1171377002768 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1171377002769 malonic semialdehyde reductase; Provisional; Region: PRK10538 1171377002770 putative NAD(P) binding site [chemical binding]; other site 1171377002771 homotetramer interface [polypeptide binding]; other site 1171377002772 homodimer interface [polypeptide binding]; other site 1171377002773 active site 1171377002774 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1171377002775 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 1171377002776 substrate binding site [chemical binding]; other site 1171377002777 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1171377002778 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1171377002779 substrate binding site [chemical binding]; other site 1171377002780 ligand binding site [chemical binding]; other site 1171377002781 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377002782 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1171377002783 putative substrate translocation pore; other site 1171377002784 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1171377002785 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 1171377002786 RNA binding surface [nucleotide binding]; other site 1171377002787 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1171377002788 active site 1171377002789 uracil binding [chemical binding]; other site 1171377002790 hypothetical protein; Provisional; Region: PRK11111 1171377002791 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1171377002792 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1171377002793 peptide binding site [polypeptide binding]; other site 1171377002794 antiporter inner membrane protein; Provisional; Region: PRK11670 1171377002795 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 1171377002796 Walker A motif; other site 1171377002797 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1171377002798 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 1171377002799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377002800 catalytic residue [active] 1171377002801 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1171377002802 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 1171377002803 substrate binding site [chemical binding]; other site 1171377002804 active site 1171377002805 catalytic residues [active] 1171377002806 heterodimer interface [polypeptide binding]; other site 1171377002807 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1171377002808 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1171377002809 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1171377002810 Predicted transcriptional regulator [Transcription]; Region: COG2944 1171377002811 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 1171377002812 non-specific DNA binding site [nucleotide binding]; other site 1171377002813 salt bridge; other site 1171377002814 sequence-specific DNA binding site [nucleotide binding]; other site 1171377002815 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1171377002816 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1171377002817 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1171377002818 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377002819 dimer interface [polypeptide binding]; other site 1171377002820 conserved gate region; other site 1171377002821 putative PBP binding loops; other site 1171377002822 ABC-ATPase subunit interface; other site 1171377002823 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1171377002824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377002825 Walker A/P-loop; other site 1171377002826 ATP binding site [chemical binding]; other site 1171377002827 Q-loop/lid; other site 1171377002828 ABC transporter signature motif; other site 1171377002829 Walker B; other site 1171377002830 D-loop; other site 1171377002831 H-loop/switch region; other site 1171377002832 TOBE domain; Region: TOBE; cl01440 1171377002833 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1171377002834 catalytic core [active] 1171377002835 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1171377002836 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 1171377002837 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1171377002838 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1171377002839 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1171377002840 GTP-binding protein LepA; Provisional; Region: PRK05433 1171377002841 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1171377002842 G1 box; other site 1171377002843 putative GEF interaction site [polypeptide binding]; other site 1171377002844 GTP/Mg2+ binding site [chemical binding]; other site 1171377002845 Switch I region; other site 1171377002846 G2 box; other site 1171377002847 G3 box; other site 1171377002848 Switch II region; other site 1171377002849 G4 box; other site 1171377002850 G5 box; other site 1171377002851 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 1171377002852 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 1171377002853 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1171377002854 signal peptidase I; Provisional; Region: PRK10861 1171377002855 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 1171377002856 Catalytic site [active] 1171377002857 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 1171377002858 ribonuclease III; Reviewed; Region: rnc; PRK00102 1171377002859 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 1171377002860 dimerization interface [polypeptide binding]; other site 1171377002861 active site 1171377002862 metal binding site [ion binding]; metal-binding site 1171377002863 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 1171377002864 dsRNA binding site [nucleotide binding]; other site 1171377002865 GTPase Era; Reviewed; Region: era; PRK00089 1171377002866 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1171377002867 G1 box; other site 1171377002868 GTP/Mg2+ binding site [chemical binding]; other site 1171377002869 Switch I region; other site 1171377002870 G2 box; other site 1171377002871 Switch II region; other site 1171377002872 G3 box; other site 1171377002873 G4 box; other site 1171377002874 G5 box; other site 1171377002875 KH domain; Region: KH_2; pfam07650 1171377002876 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1171377002877 Recombination protein O N terminal; Region: RecO_N; pfam11967 1171377002878 Recombination protein O C terminal; Region: RecO_C; pfam02565 1171377002879 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1171377002880 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1171377002881 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1171377002882 putative active site [active] 1171377002883 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1171377002884 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1171377002885 OstA-like protein; Region: OstA; cl00844 1171377002886 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1171377002887 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1171377002888 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1171377002889 Walker A/P-loop; other site 1171377002890 ATP binding site [chemical binding]; other site 1171377002891 Q-loop/lid; other site 1171377002892 ABC transporter signature motif; other site 1171377002893 Walker B; other site 1171377002894 D-loop; other site 1171377002895 H-loop/switch region; other site 1171377002896 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 1171377002897 active site 1171377002898 phosphorylation site [posttranslational modification] 1171377002899 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1171377002900 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1171377002901 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1171377002902 Domain of unknown function (DUF329); Region: DUF329; pfam03884 1171377002903 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1171377002904 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 1171377002905 CoA-binding site [chemical binding]; other site 1171377002906 ATP-binding [chemical binding]; other site 1171377002907 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1171377002908 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1171377002909 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1171377002910 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1171377002911 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1171377002912 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1171377002913 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1171377002914 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 1171377002915 Walker A motif; other site 1171377002916 ATP binding site [chemical binding]; other site 1171377002917 Walker B motif; other site 1171377002918 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1171377002919 Pilin (bacterial filament); Region: Pilin; pfam00114 1171377002920 DNA repair protein RadA; Provisional; Region: PRK11823 1171377002921 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 1171377002922 Walker A motif/ATP binding site; other site 1171377002923 ATP binding site [chemical binding]; other site 1171377002924 Walker B motif; other site 1171377002925 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1171377002926 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1171377002927 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1171377002928 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1171377002929 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1171377002930 RNA/DNA hybrid binding site [nucleotide binding]; other site 1171377002931 active site 1171377002932 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1171377002933 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 1171377002934 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1171377002935 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377002936 dimer interface [polypeptide binding]; other site 1171377002937 conserved gate region; other site 1171377002938 putative PBP binding loops; other site 1171377002939 ABC-ATPase subunit interface; other site 1171377002940 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1171377002941 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1171377002942 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377002943 dimer interface [polypeptide binding]; other site 1171377002944 conserved gate region; other site 1171377002945 putative PBP binding loops; other site 1171377002946 ABC-ATPase subunit interface; other site 1171377002947 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1171377002948 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377002949 Walker A/P-loop; other site 1171377002950 ATP binding site [chemical binding]; other site 1171377002951 Q-loop/lid; other site 1171377002952 ABC transporter signature motif; other site 1171377002953 Walker B; other site 1171377002954 D-loop; other site 1171377002955 H-loop/switch region; other site 1171377002956 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1171377002957 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1171377002958 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377002959 Walker A/P-loop; other site 1171377002960 ATP binding site [chemical binding]; other site 1171377002961 Q-loop/lid; other site 1171377002962 ABC transporter signature motif; other site 1171377002963 Walker B; other site 1171377002964 D-loop; other site 1171377002965 H-loop/switch region; other site 1171377002966 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1171377002967 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 1171377002968 L-aspartate oxidase; Provisional; Region: PRK06175 1171377002969 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1171377002970 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1171377002971 Colicin V production protein; Region: Colicin_V; cl00567 1171377002972 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1171377002973 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1171377002974 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1171377002975 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1171377002976 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 1171377002977 dimer interface [polypeptide binding]; other site 1171377002978 active site 1171377002979 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1171377002980 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1171377002981 substrate binding site [chemical binding]; other site 1171377002982 oxyanion hole (OAH) forming residues; other site 1171377002983 trimer interface [polypeptide binding]; other site 1171377002984 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1171377002985 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1171377002986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1171377002987 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1171377002988 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1171377002989 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 1171377002990 Ligand Binding Site [chemical binding]; other site 1171377002991 Predicted permease [General function prediction only]; Region: COG2056 1171377002992 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1171377002993 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 1171377002994 putative catalytic site [active] 1171377002995 putative phosphate binding site [ion binding]; other site 1171377002996 active site 1171377002997 metal binding site A [ion binding]; metal-binding site 1171377002998 DNA binding site [nucleotide binding] 1171377002999 putative AP binding site [nucleotide binding]; other site 1171377003000 putative metal binding site B [ion binding]; other site 1171377003001 Domain of unknown function (DUF386); Region: DUF386; cl01047 1171377003002 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1171377003003 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1171377003004 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 1171377003005 putative active site [active] 1171377003006 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1171377003007 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1171377003008 inhibitor site; inhibition site 1171377003009 active site 1171377003010 dimer interface [polypeptide binding]; other site 1171377003011 catalytic residue [active] 1171377003012 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 1171377003013 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1171377003014 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 1171377003015 FeS/SAM binding site; other site 1171377003016 uncharacterized domain; Region: TIGR00702 1171377003017 YcaO-like family; Region: YcaO; pfam02624 1171377003018 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1171377003019 ATP cone domain; Region: ATP-cone; pfam03477 1171377003020 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1171377003021 effector binding site; other site 1171377003022 active site 1171377003023 Zn binding site [ion binding]; other site 1171377003024 glycine loop; other site 1171377003025 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 1171377003026 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 1171377003027 FeS/SAM binding site; other site 1171377003028 ribonuclease G; Provisional; Region: PRK11712 1171377003029 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1171377003030 homodimer interface [polypeptide binding]; other site 1171377003031 oligonucleotide binding site [chemical binding]; other site 1171377003032 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1171377003033 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1171377003034 SH3 domain-containing protein; Provisional; Region: PRK10884 1171377003035 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1171377003036 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1171377003037 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1171377003038 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 1171377003039 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1171377003040 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1171377003041 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 1171377003042 dimer interface [polypeptide binding]; other site 1171377003043 motif 1; other site 1171377003044 active site 1171377003045 motif 2; other site 1171377003046 motif 3; other site 1171377003047 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1171377003048 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 1171377003049 putative tRNA-binding site [nucleotide binding]; other site 1171377003050 B3/4 domain; Region: B3_4; pfam03483 1171377003051 tRNA synthetase B5 domain; Region: B5; smart00874 1171377003052 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 1171377003053 dimer interface [polypeptide binding]; other site 1171377003054 motif 1; other site 1171377003055 motif 3; other site 1171377003056 motif 2; other site 1171377003057 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1171377003058 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 1171377003059 IHF dimer interface [polypeptide binding]; other site 1171377003060 IHF - DNA interface [nucleotide binding]; other site 1171377003061 NlpC/P60 family; Region: NLPC_P60; pfam00877 1171377003062 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1171377003063 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1171377003064 Sulfatase; Region: Sulfatase; cl17466 1171377003065 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 1171377003066 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1171377003067 active site clefts [active] 1171377003068 zinc binding site [ion binding]; other site 1171377003069 dimer interface [polypeptide binding]; other site 1171377003070 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 1171377003071 DNA-binding site [nucleotide binding]; DNA binding site 1171377003072 RNA-binding motif; other site 1171377003073 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 1171377003074 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1171377003075 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1171377003076 Trp operon repressor; Provisional; Region: PRK01381 1171377003077 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1171377003078 Transglycosylase; Region: Transgly; cl17702 1171377003079 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1171377003080 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1171377003081 condesin subunit F; Provisional; Region: PRK05260 1171377003082 condesin subunit E; Provisional; Region: PRK05256 1171377003083 cell division protein MukB; Provisional; Region: mukB; PRK04863 1171377003084 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1171377003085 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1171377003086 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 1171377003087 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3676 1171377003088 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1171377003089 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 1171377003090 quinone interaction residues [chemical binding]; other site 1171377003091 active site 1171377003092 catalytic residues [active] 1171377003093 FMN binding site [chemical binding]; other site 1171377003094 substrate binding site [chemical binding]; other site 1171377003095 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1171377003096 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1171377003097 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1171377003098 active site 1171377003099 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1171377003100 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1171377003101 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1171377003102 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1171377003103 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1171377003104 exonuclease I; Provisional; Region: sbcB; PRK11779 1171377003105 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1171377003106 active site 1171377003107 catalytic site [active] 1171377003108 substrate binding site [chemical binding]; other site 1171377003109 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1171377003110 Uncharacterized conserved protein [Function unknown]; Region: COG1912 1171377003111 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1171377003112 putative active site [active] 1171377003113 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1171377003114 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1171377003115 active site 1171377003116 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1171377003117 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1171377003118 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1171377003119 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1171377003120 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1171377003121 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1171377003122 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 1171377003123 CAP-like domain; other site 1171377003124 active site 1171377003125 primary dimer interface [polypeptide binding]; other site 1171377003126 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1171377003127 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1171377003128 MoaE interaction surface [polypeptide binding]; other site 1171377003129 MoeB interaction surface [polypeptide binding]; other site 1171377003130 thiocarboxylated glycine; other site 1171377003131 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 1171377003132 MoaE homodimer interface [polypeptide binding]; other site 1171377003133 MoaD interaction [polypeptide binding]; other site 1171377003134 active site residues [active] 1171377003135 metal-binding heat shock protein; Provisional; Region: PRK00016 1171377003136 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1171377003137 Helicase; Region: Helicase_RecD; pfam05127 1171377003138 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1171377003139 Coenzyme A binding pocket [chemical binding]; other site 1171377003140 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1171377003141 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1171377003142 ligand binding site [chemical binding]; other site 1171377003143 calcium binding site [ion binding]; other site 1171377003144 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1171377003145 MltA specific insert domain; Region: MltA; smart00925 1171377003146 3D domain; Region: 3D; pfam06725 1171377003147 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1171377003148 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1171377003149 putative active site [active] 1171377003150 putative dimer interface [polypeptide binding]; other site 1171377003151 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1171377003152 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 1171377003153 ABC-ATPase subunit interface; other site 1171377003154 dimer interface [polypeptide binding]; other site 1171377003155 putative PBP binding regions; other site 1171377003156 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1171377003157 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1171377003158 putative peptidase; Provisional; Region: PRK11649 1171377003159 Peptidase family M23; Region: Peptidase_M23; pfam01551 1171377003160 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1171377003161 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1171377003162 dimerization domain [polypeptide binding]; other site 1171377003163 dimer interface [polypeptide binding]; other site 1171377003164 catalytic residues [active] 1171377003165 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1171377003166 DHH family; Region: DHH; pfam01368 1171377003167 DHHA1 domain; Region: DHHA1; pfam02272 1171377003168 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1171377003169 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1171377003170 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1171377003171 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1171377003172 ligand binding site [chemical binding]; other site 1171377003173 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1171377003174 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 1171377003175 active site 1171377003176 motif I; other site 1171377003177 motif II; other site 1171377003178 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 1171377003179 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1171377003180 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1171377003181 dimer interface [polypeptide binding]; other site 1171377003182 active site 1171377003183 catalytic residue [active] 1171377003184 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1171377003185 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1171377003186 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1171377003187 homodimer interface [polypeptide binding]; other site 1171377003188 NADP binding site [chemical binding]; other site 1171377003189 substrate binding site [chemical binding]; other site 1171377003190 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1171377003191 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1171377003192 Hemerythrin-like domain; Region: Hr-like; cd12108 1171377003193 Fe binding site [ion binding]; other site 1171377003194 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1171377003195 CPxP motif; other site 1171377003196 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1171377003197 DctM-like transporters; Region: DctM; pfam06808 1171377003198 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1171377003199 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 1171377003200 substrate binding pocket [chemical binding]; other site 1171377003201 membrane-bound complex binding site; other site 1171377003202 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1171377003203 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 1171377003204 catalytic Zn binding site [ion binding]; other site 1171377003205 structural Zn binding site [ion binding]; other site 1171377003206 NAD(P) binding site [chemical binding]; other site 1171377003207 tartrate dehydrogenase; Region: TTC; TIGR02089 1171377003208 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1171377003209 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1171377003210 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1171377003211 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 1171377003212 S-adenosylmethionine binding site [chemical binding]; other site 1171377003213 glutamate dehydrogenase; Provisional; Region: PRK09414 1171377003214 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1171377003215 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1171377003216 NAD(P) binding site [chemical binding]; other site 1171377003217 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 1171377003218 excinuclease ABC subunit B; Provisional; Region: PRK05298 1171377003219 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 1171377003220 ATP-binding site [chemical binding]; other site 1171377003221 ATP binding site [chemical binding]; other site 1171377003222 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 1171377003223 nucleotide binding region [chemical binding]; other site 1171377003224 ATP-binding site [chemical binding]; other site 1171377003225 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1171377003226 Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]; Region: UvrB; COG0556 1171377003227 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1171377003228 ATP cone domain; Region: ATP-cone; pfam03477 1171377003229 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1171377003230 active site 1171377003231 dimer interface [polypeptide binding]; other site 1171377003232 catalytic residues [active] 1171377003233 effector binding site; other site 1171377003234 R2 peptide binding site; other site 1171377003235 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1171377003236 dimer interface [polypeptide binding]; other site 1171377003237 putative radical transfer pathway; other site 1171377003238 diiron center [ion binding]; other site 1171377003239 tyrosyl radical; other site 1171377003240 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1171377003241 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1171377003242 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1171377003243 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1171377003244 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1171377003245 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 1171377003246 dimer interface [polypeptide binding]; other site 1171377003247 ssDNA binding site [nucleotide binding]; other site 1171377003248 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1171377003249 Protein of unknown function (DUF1043); Region: DUF1043; pfam06295 1171377003250 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 1171377003251 23S rRNA interface [nucleotide binding]; other site 1171377003252 L3 interface [polypeptide binding]; other site 1171377003253 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1171377003254 AmiB activator; Provisional; Region: PRK11637 1171377003255 Peptidase family M23; Region: Peptidase_M23; pfam01551 1171377003256 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1171377003257 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1171377003258 Surface antigen; Region: Bac_surface_Ag; pfam01103 1171377003259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1171377003260 Family of unknown function (DUF490); Region: DUF490; pfam04357 1171377003261 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1171377003262 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1171377003263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377003264 Walker A/P-loop; other site 1171377003265 ATP binding site [chemical binding]; other site 1171377003266 Q-loop/lid; other site 1171377003267 ABC transporter signature motif; other site 1171377003268 Walker B; other site 1171377003269 D-loop; other site 1171377003270 H-loop/switch region; other site 1171377003271 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1171377003272 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1171377003273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377003274 Walker A/P-loop; other site 1171377003275 ATP binding site [chemical binding]; other site 1171377003276 Q-loop/lid; other site 1171377003277 ABC transporter signature motif; other site 1171377003278 Walker B; other site 1171377003279 D-loop; other site 1171377003280 H-loop/switch region; other site 1171377003281 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1171377003282 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1171377003283 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1171377003284 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1171377003285 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1171377003286 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 1171377003287 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1171377003288 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1171377003289 molybdopterin cofactor binding site; other site 1171377003290 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 1171377003291 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1171377003292 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1171377003293 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 1171377003294 Mg2+ binding site [ion binding]; other site 1171377003295 G-X-G motif; other site 1171377003296 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 1171377003297 anchoring element; other site 1171377003298 dimer interface [polypeptide binding]; other site 1171377003299 ATP binding site [chemical binding]; other site 1171377003300 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 1171377003301 active site 1171377003302 putative metal-binding site [ion binding]; other site 1171377003303 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1171377003304 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1171377003305 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1171377003306 dimer interface [polypeptide binding]; other site 1171377003307 putative anticodon binding site; other site 1171377003308 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1171377003309 motif 1; other site 1171377003310 active site 1171377003311 motif 2; other site 1171377003312 motif 3; other site 1171377003313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377003314 metabolite-proton symporter; Region: 2A0106; TIGR00883 1171377003315 putative substrate translocation pore; other site 1171377003316 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 1171377003317 thiamine phosphate binding site [chemical binding]; other site 1171377003318 active site 1171377003319 pyrophosphate binding site [ion binding]; other site 1171377003320 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1171377003321 dimer interface [polypeptide binding]; other site 1171377003322 substrate binding site [chemical binding]; other site 1171377003323 ATP binding site [chemical binding]; other site 1171377003324 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1171377003325 substrate binding site [chemical binding]; other site 1171377003326 multimerization interface [polypeptide binding]; other site 1171377003327 ATP binding site [chemical binding]; other site 1171377003328 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 1171377003329 NMT1/THI5 like; Region: NMT1; pfam09084 1171377003330 substrate binding pocket [chemical binding]; other site 1171377003331 membrane-bound complex binding site; other site 1171377003332 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1171377003333 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1171377003334 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1171377003335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377003336 Walker A/P-loop; other site 1171377003337 ATP binding site [chemical binding]; other site 1171377003338 Q-loop/lid; other site 1171377003339 ABC transporter signature motif; other site 1171377003340 Walker B; other site 1171377003341 D-loop; other site 1171377003342 H-loop/switch region; other site 1171377003343 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1171377003344 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1171377003345 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1171377003346 RNA binding site [nucleotide binding]; other site 1171377003347 active site 1171377003348 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1171377003349 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1171377003350 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1171377003351 hypothetical protein; Provisional; Region: PRK05423 1171377003352 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1171377003353 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1171377003354 C-terminal domain interface [polypeptide binding]; other site 1171377003355 putative GSH binding site (G-site) [chemical binding]; other site 1171377003356 dimer interface [polypeptide binding]; other site 1171377003357 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1171377003358 dimer interface [polypeptide binding]; other site 1171377003359 N-terminal domain interface [polypeptide binding]; other site 1171377003360 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1171377003361 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1171377003362 zinc binding site [ion binding]; other site 1171377003363 putative ligand binding site [chemical binding]; other site 1171377003364 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1171377003365 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1171377003366 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 1171377003367 trimer interface [polypeptide binding]; other site 1171377003368 dimer interface [polypeptide binding]; other site 1171377003369 putative active site [active] 1171377003370 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1171377003371 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 1171377003372 FeS/SAM binding site; other site 1171377003373 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1171377003374 Cupin; Region: Cupin_6; pfam12852 1171377003375 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1171377003376 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1171377003377 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1171377003378 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1171377003379 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1171377003380 AAA domain; Region: AAA_14; pfam13173 1171377003381 AAA ATPase domain; Region: AAA_15; pfam13175 1171377003382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377003383 Walker B; other site 1171377003384 D-loop; other site 1171377003385 H-loop/switch region; other site 1171377003386 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 1171377003387 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1171377003388 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1171377003389 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 1171377003390 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1171377003391 putative [Fe4-S4] binding site [ion binding]; other site 1171377003392 putative molybdopterin cofactor binding site [chemical binding]; other site 1171377003393 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1171377003394 putative molybdopterin cofactor binding site; other site 1171377003395 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1171377003396 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1171377003397 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1171377003398 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1171377003399 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1171377003400 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1171377003401 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 1171377003402 generic binding surface II; other site 1171377003403 generic binding surface I; other site 1171377003404 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1171377003405 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1171377003406 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1171377003407 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 1171377003408 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 1171377003409 active site 1171377003410 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1171377003411 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1171377003412 active site 1171377003413 metal binding site [ion binding]; metal-binding site 1171377003414 TPR repeat; Region: TPR_11; pfam13414 1171377003415 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1171377003416 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1171377003417 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 1171377003418 exoribonuclease II; Provisional; Region: PRK05054 1171377003419 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1171377003420 RNB domain; Region: RNB; pfam00773 1171377003421 S1 RNA binding domain; Region: S1; pfam00575 1171377003422 RNA binding site [nucleotide binding]; other site 1171377003423 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 1171377003424 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1171377003425 NAD binding site [chemical binding]; other site 1171377003426 homotetramer interface [polypeptide binding]; other site 1171377003427 homodimer interface [polypeptide binding]; other site 1171377003428 substrate binding site [chemical binding]; other site 1171377003429 active site 1171377003430 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1171377003431 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 1171377003432 S-adenosylmethionine binding site [chemical binding]; other site 1171377003433 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1171377003434 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 1171377003435 Walker A motif; other site 1171377003436 ATP binding site [chemical binding]; other site 1171377003437 Walker B motif; other site 1171377003438 arginine finger; other site 1171377003439 Peptidase family M41; Region: Peptidase_M41; pfam01434 1171377003440 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1171377003441 aromatic amino acid transport protein; Region: araaP; TIGR00837 1171377003442 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1171377003443 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 1171377003444 dimerization interface [polypeptide binding]; other site 1171377003445 putative DNA binding site [nucleotide binding]; other site 1171377003446 putative Zn2+ binding site [ion binding]; other site 1171377003447 AsnC family; Region: AsnC_trans_reg; pfam01037 1171377003448 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377003449 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1171377003450 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1171377003451 Predicted metalloprotease [General function prediction only]; Region: COG2321 1171377003452 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1171377003453 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1171377003454 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1171377003455 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1171377003456 Glycoprotease family; Region: Peptidase_M22; pfam00814 1171377003457 aspartate kinase III; Validated; Region: PRK09084 1171377003458 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1171377003459 nucleotide binding site [chemical binding]; other site 1171377003460 substrate binding site [chemical binding]; other site 1171377003461 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1171377003462 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1171377003463 dimer interface [polypeptide binding]; other site 1171377003464 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1171377003465 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1171377003466 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 1171377003467 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1171377003468 active site 1171377003469 putative interdomain interaction site [polypeptide binding]; other site 1171377003470 putative metal-binding site [ion binding]; other site 1171377003471 putative nucleotide binding site [chemical binding]; other site 1171377003472 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 1171377003473 domain I; other site 1171377003474 DNA binding groove [nucleotide binding] 1171377003475 phosphate binding site [ion binding]; other site 1171377003476 domain II; other site 1171377003477 domain III; other site 1171377003478 nucleotide binding site [chemical binding]; other site 1171377003479 catalytic site [active] 1171377003480 domain IV; other site 1171377003481 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 1171377003482 proline aminopeptidase P II; Provisional; Region: PRK10879 1171377003483 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1171377003484 active site 1171377003485 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1171377003486 homodimer interface [polypeptide binding]; other site 1171377003487 substrate-cofactor binding pocket; other site 1171377003488 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377003489 catalytic residue [active] 1171377003490 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1171377003491 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1171377003492 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1171377003493 NAD binding site [chemical binding]; other site 1171377003494 ATP-grasp domain; Region: ATP-grasp; pfam02222 1171377003495 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1171377003496 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1171377003497 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1171377003498 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1171377003499 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1171377003500 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1171377003501 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1171377003502 purine monophosphate binding site [chemical binding]; other site 1171377003503 dimer interface [polypeptide binding]; other site 1171377003504 putative catalytic residues [active] 1171377003505 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1171377003506 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1171377003507 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 1171377003508 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1171377003509 active site 1171377003510 substrate binding site [chemical binding]; other site 1171377003511 cosubstrate binding site; other site 1171377003512 catalytic site [active] 1171377003513 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1171377003514 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 1171377003515 dimerization interface [polypeptide binding]; other site 1171377003516 putative ATP binding site [chemical binding]; other site 1171377003517 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1171377003518 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 1171377003519 active site 1171377003520 tetramer interface [polypeptide binding]; other site 1171377003521 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1171377003522 active site 1171377003523 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1171377003524 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1171377003525 ATP binding site [chemical binding]; other site 1171377003526 active site 1171377003527 substrate binding site [chemical binding]; other site 1171377003528 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1171377003529 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 1171377003530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377003531 homodimer interface [polypeptide binding]; other site 1171377003532 catalytic residue [active] 1171377003533 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1171377003534 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 1171377003535 hinge; other site 1171377003536 active site 1171377003537 D-lactate dehydrogenase; Provisional; Region: PRK11183 1171377003538 FAD binding domain; Region: FAD_binding_4; pfam01565 1171377003539 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1171377003540 phosphate acetyltransferase; Reviewed; Region: PRK05632 1171377003541 DRTGG domain; Region: DRTGG; pfam07085 1171377003542 phosphate acetyltransferase; Region: pta; TIGR00651 1171377003543 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1171377003544 propionate/acetate kinase; Provisional; Region: PRK12379 1171377003545 ribonuclease D; Provisional; Region: PRK10829 1171377003546 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1171377003547 catalytic site [active] 1171377003548 putative active site [active] 1171377003549 putative substrate binding site [chemical binding]; other site 1171377003550 HRDC domain; Region: HRDC; pfam00570 1171377003551 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1171377003552 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1171377003553 AAA domain; Region: AAA_26; pfam13500 1171377003554 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1171377003555 translation initiation factor Sui1; Validated; Region: PRK06824 1171377003556 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1171377003557 putative rRNA binding site [nucleotide binding]; other site 1171377003558 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 1171377003559 active site 1171377003560 dimer interface [polypeptide binding]; other site 1171377003561 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1171377003562 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1171377003563 binding surface 1171377003564 TPR motif; other site 1171377003565 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 1171377003566 Predicted membrane protein [Function unknown]; Region: COG3771 1171377003567 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 1171377003568 IHF dimer interface [polypeptide binding]; other site 1171377003569 IHF - DNA interface [nucleotide binding]; other site 1171377003570 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1171377003571 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 1171377003572 RNA binding site [nucleotide binding]; other site 1171377003573 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 1171377003574 RNA binding site [nucleotide binding]; other site 1171377003575 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 1171377003576 RNA binding site [nucleotide binding]; other site 1171377003577 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 1171377003578 RNA binding site [nucleotide binding]; other site 1171377003579 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1171377003580 RNA binding site [nucleotide binding]; other site 1171377003581 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 1171377003582 RNA binding site [nucleotide binding]; other site 1171377003583 cytidylate kinase; Provisional; Region: cmk; PRK00023 1171377003584 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 1171377003585 CMP-binding site; other site 1171377003586 The sites determining sugar specificity; other site 1171377003587 serine endoprotease; Provisional; Region: PRK10898 1171377003588 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1171377003589 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 1171377003590 protein binding site [polypeptide binding]; other site 1171377003591 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1171377003592 active site 1171377003593 tetramer interface; other site 1171377003594 carbon storage regulator; Provisional; Region: PRK01712 1171377003595 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1171377003596 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 1171377003597 motif 1; other site 1171377003598 active site 1171377003599 motif 2; other site 1171377003600 motif 3; other site 1171377003601 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1171377003602 DHHA1 domain; Region: DHHA1; pfam02272 1171377003603 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 1171377003604 Ligand Binding Site [chemical binding]; other site 1171377003605 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1171377003606 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1171377003607 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1171377003608 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1171377003609 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1171377003610 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 1171377003611 E3 interaction surface; other site 1171377003612 lipoyl attachment site [posttranslational modification]; other site 1171377003613 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 1171377003614 E3 interaction surface; other site 1171377003615 lipoyl attachment site [posttranslational modification]; other site 1171377003616 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 1171377003617 E3 interaction surface; other site 1171377003618 lipoyl attachment site [posttranslational modification]; other site 1171377003619 e3 binding domain; Region: E3_binding; pfam02817 1171377003620 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1171377003621 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1171377003622 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1171377003623 dimer interface [polypeptide binding]; other site 1171377003624 TPP-binding site [chemical binding]; other site 1171377003625 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1171377003626 active site 1171377003627 homotetramer interface [polypeptide binding]; other site 1171377003628 homodimer interface [polypeptide binding]; other site 1171377003629 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1171377003630 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 1171377003631 active site 1171377003632 substrate-binding site [chemical binding]; other site 1171377003633 metal-binding site [ion binding] 1171377003634 ATP binding site [chemical binding]; other site 1171377003635 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1171377003636 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1171377003637 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1171377003638 substrate binding site; other site 1171377003639 dimer interface; other site 1171377003640 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 1171377003641 homotrimer interaction site [polypeptide binding]; other site 1171377003642 zinc binding site [ion binding]; other site 1171377003643 CDP-binding sites; other site 1171377003644 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1171377003645 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1171377003646 trimer interface [polypeptide binding]; other site 1171377003647 eyelet of channel; other site 1171377003648 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1171377003649 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1171377003650 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1171377003651 Tetramer interface [polypeptide binding]; other site 1171377003652 active site 1171377003653 FMN-binding site [chemical binding]; other site 1171377003654 hypothetical protein; Provisional; Region: PRK11281 1171377003655 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1171377003656 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1171377003657 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1171377003658 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1171377003659 acyl-activating enzyme (AAE) consensus motif; other site 1171377003660 putative AMP binding site [chemical binding]; other site 1171377003661 putative active site [active] 1171377003662 putative CoA binding site [chemical binding]; other site 1171377003663 replication initiation regulator SeqA; Provisional; Region: PRK11187 1171377003664 acyl-CoA esterase; Provisional; Region: PRK10673 1171377003665 PGAP1-like protein; Region: PGAP1; pfam07819 1171377003666 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1171377003667 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1171377003668 ATP binding site [chemical binding]; other site 1171377003669 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1171377003670 DNA methylase; Region: N6_N4_Mtase; pfam01555 1171377003671 DNA methylase; Region: N6_N4_Mtase; pfam01555 1171377003672 multidrug efflux protein; Reviewed; Region: PRK09579 1171377003673 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1171377003674 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1171377003675 HlyD family secretion protein; Region: HlyD_3; pfam13437 1171377003676 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1171377003677 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1171377003678 gamma-glutamyl kinase; Provisional; Region: PRK05429 1171377003679 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 1171377003680 nucleotide binding site [chemical binding]; other site 1171377003681 homotetrameric interface [polypeptide binding]; other site 1171377003682 putative phosphate binding site [ion binding]; other site 1171377003683 putative allosteric binding site; other site 1171377003684 PUA domain; Region: PUA; pfam01472 1171377003685 hypothetical protein; Provisional; Region: PRK10621 1171377003686 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1171377003687 endonuclease III; Provisional; Region: PRK10702 1171377003688 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1171377003689 minor groove reading motif; other site 1171377003690 helix-hairpin-helix signature motif; other site 1171377003691 substrate binding pocket [chemical binding]; other site 1171377003692 active site 1171377003693 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1171377003694 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1171377003695 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1171377003696 molybdopterin cofactor binding site [chemical binding]; other site 1171377003697 substrate binding site [chemical binding]; other site 1171377003698 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1171377003699 molybdopterin cofactor binding site; other site 1171377003700 methionine synthase; Provisional; Region: PRK01207 1171377003701 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 1171377003702 substrate binding site [chemical binding]; other site 1171377003703 THF binding site; other site 1171377003704 zinc-binding site [ion binding]; other site 1171377003705 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1171377003706 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1171377003707 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1171377003708 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1171377003709 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 1171377003710 DNA binding residues [nucleotide binding] 1171377003711 dimerization interface [polypeptide binding]; other site 1171377003712 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1171377003713 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1171377003714 ligand binding site [chemical binding]; other site 1171377003715 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1171377003716 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1171377003717 seryl-tRNA synthetase; Provisional; Region: PRK05431 1171377003718 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1171377003719 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 1171377003720 dimer interface [polypeptide binding]; other site 1171377003721 active site 1171377003722 motif 1; other site 1171377003723 motif 2; other site 1171377003724 motif 3; other site 1171377003725 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 1171377003726 SmpB-tmRNA interface; other site 1171377003727 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1171377003728 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 1171377003729 Walker A motif; other site 1171377003730 ATP binding site [chemical binding]; other site 1171377003731 Walker B motif; other site 1171377003732 arginine finger; other site 1171377003733 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1171377003734 putative lysogenization regulator; Reviewed; Region: PRK00218 1171377003735 adenylosuccinate lyase; Provisional; Region: PRK09285 1171377003736 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1171377003737 tetramer interface [polypeptide binding]; other site 1171377003738 active site 1171377003739 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1171377003740 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1171377003741 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1171377003742 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1171377003743 UbiA prenyltransferase family; Region: UbiA; pfam01040 1171377003744 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1171377003745 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1171377003746 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 1171377003747 active site 1171377003748 interdomain interaction site; other site 1171377003749 putative metal-binding site [ion binding]; other site 1171377003750 nucleotide binding site [chemical binding]; other site 1171377003751 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 1171377003752 domain I; other site 1171377003753 DNA binding groove [nucleotide binding] 1171377003754 phosphate binding site [ion binding]; other site 1171377003755 domain II; other site 1171377003756 domain III; other site 1171377003757 nucleotide binding site [chemical binding]; other site 1171377003758 catalytic site [active] 1171377003759 domain IV; other site 1171377003760 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1171377003761 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1171377003762 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1171377003763 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1171377003764 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1171377003765 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377003766 Walker A/P-loop; other site 1171377003767 ATP binding site [chemical binding]; other site 1171377003768 Q-loop/lid; other site 1171377003769 ABC transporter signature motif; other site 1171377003770 Walker B; other site 1171377003771 D-loop; other site 1171377003772 H-loop/switch region; other site 1171377003773 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1171377003774 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 1171377003775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377003776 dimer interface [polypeptide binding]; other site 1171377003777 conserved gate region; other site 1171377003778 putative PBP binding loops; other site 1171377003779 ABC-ATPase subunit interface; other site 1171377003780 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 1171377003781 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377003782 putative PBP binding loops; other site 1171377003783 dimer interface [polypeptide binding]; other site 1171377003784 ABC-ATPase subunit interface; other site 1171377003785 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1171377003786 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1171377003787 peptide binding site [polypeptide binding]; other site 1171377003788 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1171377003789 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1171377003790 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 1171377003791 Walker A motif; other site 1171377003792 ATP binding site [chemical binding]; other site 1171377003793 Walker B motif; other site 1171377003794 arginine finger; other site 1171377003795 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 1171377003796 putative nucleotide binding site [chemical binding]; other site 1171377003797 uridine monophosphate binding site [chemical binding]; other site 1171377003798 homohexameric interface [polypeptide binding]; other site 1171377003799 elongation factor Ts; Provisional; Region: tsf; PRK09377 1171377003800 UBA/TS-N domain; Region: UBA; pfam00627 1171377003801 Elongation factor TS; Region: EF_TS; pfam00889 1171377003802 Elongation factor TS; Region: EF_TS; pfam00889 1171377003803 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 1171377003804 rRNA interaction site [nucleotide binding]; other site 1171377003805 S8 interaction site; other site 1171377003806 putative laminin-1 binding site; other site 1171377003807 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1171377003808 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1171377003809 Substrate binding site; other site 1171377003810 Mg++ binding site; other site 1171377003811 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 1171377003812 active site 1171377003813 substrate binding site [chemical binding]; other site 1171377003814 CoA binding site [chemical binding]; other site 1171377003815 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1171377003816 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1171377003817 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1171377003818 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1171377003819 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1171377003820 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1171377003821 Abortive infection C-terminus; Region: Abi_C; pfam14355 1171377003822 Transposase IS200 like; Region: Y1_Tnp; cl00848 1171377003823 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1171377003824 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1171377003825 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 1171377003826 ATP binding site [chemical binding]; other site 1171377003827 putative Mg++ binding site [ion binding]; other site 1171377003828 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1171377003829 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1171377003830 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1171377003831 putative dimer interface [polypeptide binding]; other site 1171377003832 putative anticodon binding site; other site 1171377003833 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1171377003834 homodimer interface [polypeptide binding]; other site 1171377003835 motif 1; other site 1171377003836 motif 2; other site 1171377003837 active site 1171377003838 motif 3; other site 1171377003839 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1171377003840 active site 1171377003841 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1171377003842 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 1171377003843 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1171377003844 catalytic residue [active] 1171377003845 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1171377003846 aromatic amino acid transport protein; Region: araaP; TIGR00837 1171377003847 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1171377003848 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1171377003849 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1171377003850 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1171377003851 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1171377003852 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1171377003853 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1171377003854 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1171377003855 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1171377003856 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1171377003857 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1171377003858 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1171377003859 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1171377003860 putative NAD(P) binding site [chemical binding]; other site 1171377003861 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1171377003862 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06882 1171377003863 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1171377003864 PYR/PP interface [polypeptide binding]; other site 1171377003865 dimer interface [polypeptide binding]; other site 1171377003866 TPP binding site [chemical binding]; other site 1171377003867 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1171377003868 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 1171377003869 TPP-binding site [chemical binding]; other site 1171377003870 dimer interface [polypeptide binding]; other site 1171377003871 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1171377003872 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1171377003873 putative valine binding site [chemical binding]; other site 1171377003874 dimer interface [polypeptide binding]; other site 1171377003875 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1171377003876 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1171377003877 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1171377003878 active site 1171377003879 HIGH motif; other site 1171377003880 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1171377003881 KMSKS motif; other site 1171377003882 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1171377003883 tRNA binding surface [nucleotide binding]; other site 1171377003884 anticodon binding site; other site 1171377003885 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1171377003886 substrate binding site [chemical binding]; other site 1171377003887 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1171377003888 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1171377003889 active site 1171377003890 metal binding site [ion binding]; metal-binding site 1171377003891 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1171377003892 inner membrane transport permease; Provisional; Region: PRK15066 1171377003893 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1171377003894 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1171377003895 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1171377003896 Walker A/P-loop; other site 1171377003897 ATP binding site [chemical binding]; other site 1171377003898 Q-loop/lid; other site 1171377003899 ABC transporter signature motif; other site 1171377003900 Walker B; other site 1171377003901 D-loop; other site 1171377003902 H-loop/switch region; other site 1171377003903 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1171377003904 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 1171377003905 Walker A motif; other site 1171377003906 ATP binding site [chemical binding]; other site 1171377003907 Walker B motif; other site 1171377003908 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1171377003909 arginine finger; other site 1171377003910 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1171377003911 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1171377003912 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1171377003913 active site 1171377003914 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1171377003915 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377003916 putative substrate translocation pore; other site 1171377003917 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1171377003918 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1171377003919 Putative exonuclease, RdgC; Region: RdgC; pfam04381 1171377003920 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1171377003921 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1171377003922 active site 1171377003923 NTP binding site [chemical binding]; other site 1171377003924 metal binding triad [ion binding]; metal-binding site 1171377003925 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1171377003926 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1171377003927 Zn2+ binding site [ion binding]; other site 1171377003928 Mg2+ binding site [ion binding]; other site 1171377003929 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1171377003930 Clp amino terminal domain; Region: Clp_N; pfam02861 1171377003931 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 1171377003932 Walker A motif; other site 1171377003933 ATP binding site [chemical binding]; other site 1171377003934 Walker B motif; other site 1171377003935 arginine finger; other site 1171377003936 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 1171377003937 Walker A motif; other site 1171377003938 ATP binding site [chemical binding]; other site 1171377003939 Walker B motif; other site 1171377003940 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1171377003941 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1171377003942 trimer interface [polypeptide binding]; other site 1171377003943 active site 1171377003944 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1171377003945 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1171377003946 Sugar specificity; other site 1171377003947 Pyrimidine base specificity; other site 1171377003948 ATP-binding site [chemical binding]; other site 1171377003949 Lysine efflux permease [General function prediction only]; Region: COG1279 1171377003950 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1171377003951 translation initiation factor IF-2; Region: IF-2; TIGR00487 1171377003952 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1171377003953 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1171377003954 G1 box; other site 1171377003955 putative GEF interaction site [polypeptide binding]; other site 1171377003956 GTP/Mg2+ binding site [chemical binding]; other site 1171377003957 Switch I region; other site 1171377003958 G2 box; other site 1171377003959 G3 box; other site 1171377003960 Switch II region; other site 1171377003961 G4 box; other site 1171377003962 G5 box; other site 1171377003963 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 1171377003964 Translation-initiation factor 2; Region: IF-2; pfam11987 1171377003965 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 1171377003966 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1171377003967 NusA N-terminal domain; Region: NusA_N; pfam08529 1171377003968 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 1171377003969 RNA binding site [nucleotide binding]; other site 1171377003970 homodimer interface [polypeptide binding]; other site 1171377003971 NusA-like KH domain; Region: KH_5; pfam13184 1171377003972 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 1171377003973 G-X-X-G motif; other site 1171377003974 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1171377003975 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1171377003976 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1171377003977 Sm and related proteins; Region: Sm_like; cl00259 1171377003978 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1171377003979 putative oligomer interface [polypeptide binding]; other site 1171377003980 putative RNA binding site [nucleotide binding]; other site 1171377003981 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 1171377003982 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1171377003983 putative active site [active] 1171377003984 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1171377003985 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1171377003986 active site 1171377003987 HIGH motif; other site 1171377003988 nucleotide binding site [chemical binding]; other site 1171377003989 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1171377003990 KMSKS motif; other site 1171377003991 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1171377003992 Imelysin; Region: Peptidase_M75; pfam09375 1171377003993 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1171377003994 Iron permease FTR1 family; Region: FTR1; cl00475 1171377003995 glycogen branching enzyme; Provisional; Region: PRK05402 1171377003996 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1171377003997 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1171377003998 active site 1171377003999 catalytic site [active] 1171377004000 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1171377004001 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1171377004002 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 1171377004003 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1171377004004 active site 1171377004005 catalytic site [active] 1171377004006 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1171377004007 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1171377004008 ligand binding site; other site 1171377004009 oligomer interface; other site 1171377004010 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 1171377004011 dimer interface [polypeptide binding]; other site 1171377004012 N-terminal domain interface [polypeptide binding]; other site 1171377004013 sulfate 1 binding site; other site 1171377004014 glycogen synthase; Provisional; Region: glgA; PRK00654 1171377004015 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 1171377004016 ADP-binding pocket [chemical binding]; other site 1171377004017 homodimer interface [polypeptide binding]; other site 1171377004018 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1171377004019 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 1171377004020 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 1171377004021 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 1171377004022 active site 1171377004023 GMP synthase; Reviewed; Region: guaA; PRK00074 1171377004024 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1171377004025 AMP/PPi binding site [chemical binding]; other site 1171377004026 candidate oxyanion hole; other site 1171377004027 catalytic triad [active] 1171377004028 potential glutamine specificity residues [chemical binding]; other site 1171377004029 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 1171377004030 ATP Binding subdomain [chemical binding]; other site 1171377004031 Ligand Binding sites [chemical binding]; other site 1171377004032 Dimerization subdomain; other site 1171377004033 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1171377004034 DinI-like family; Region: DinI; cl11630 1171377004035 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1171377004036 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1171377004037 active site 1171377004038 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1171377004039 catalytic core [active] 1171377004040 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1171377004041 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1171377004042 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 1171377004043 dimer interface [polypeptide binding]; other site 1171377004044 active site 1171377004045 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1171377004046 folate binding site [chemical binding]; other site 1171377004047 ornithine carbamoyltransferase; Validated; Region: PRK02102 1171377004048 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1171377004049 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1171377004050 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1171377004051 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 1171377004052 ATP binding site [chemical binding]; other site 1171377004053 Mg++ binding site [ion binding]; other site 1171377004054 motif III; other site 1171377004055 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 1171377004056 nucleotide binding region [chemical binding]; other site 1171377004057 ATP-binding site [chemical binding]; other site 1171377004058 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1171377004059 Domain of unknown function DUF87; Region: DUF87; pfam01935 1171377004060 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1171377004061 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1171377004062 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 1171377004063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377004064 homodimer interface [polypeptide binding]; other site 1171377004065 catalytic residue [active] 1171377004066 DNA polymerase I; Provisional; Region: PRK05755 1171377004067 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1171377004068 active site 1171377004069 metal binding site 1 [ion binding]; metal-binding site 1171377004070 putative 5' ssDNA interaction site; other site 1171377004071 metal binding site 3; metal-binding site 1171377004072 metal binding site 2 [ion binding]; metal-binding site 1171377004073 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1171377004074 putative DNA binding site [nucleotide binding]; other site 1171377004075 putative metal binding site [ion binding]; other site 1171377004076 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 1171377004077 active site 1171377004078 catalytic site [active] 1171377004079 substrate binding site [chemical binding]; other site 1171377004080 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1171377004081 active site 1171377004082 DNA binding site [nucleotide binding] 1171377004083 catalytic site [active] 1171377004084 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1171377004085 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1171377004086 Competence protein; Region: Competence; pfam03772 1171377004087 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1171377004088 serine/threonine transporter SstT; Provisional; Region: PRK13628 1171377004089 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1171377004090 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 1171377004091 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1171377004092 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1171377004093 active site 1171377004094 metal binding site [ion binding]; metal-binding site 1171377004095 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1171377004096 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 1171377004097 putative transporter; Validated; Region: PRK03818 1171377004098 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1171377004099 TrkA-C domain; Region: TrkA_C; pfam02080 1171377004100 TrkA-C domain; Region: TrkA_C; pfam02080 1171377004101 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1171377004102 peptidase PmbA; Provisional; Region: PRK11040 1171377004103 hypothetical protein; Provisional; Region: PRK05255 1171377004104 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1171377004105 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 1171377004106 S-adenosylmethionine binding site [chemical binding]; other site 1171377004107 cystathionine gamma-synthase; Reviewed; Region: PRK08247 1171377004108 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 1171377004109 homodimer interface [polypeptide binding]; other site 1171377004110 substrate-cofactor binding pocket; other site 1171377004111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377004112 catalytic residue [active] 1171377004113 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1171377004114 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1171377004115 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1171377004116 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1171377004117 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1171377004118 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1171377004119 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1171377004120 thymidine kinase; Provisional; Region: PRK04296 1171377004121 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1171377004122 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 1171377004123 ligand binding site [chemical binding]; other site 1171377004124 flexible hinge region; other site 1171377004125 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 1171377004126 putative switch regulator; other site 1171377004127 non-specific DNA interactions [nucleotide binding]; other site 1171377004128 DNA binding site [nucleotide binding] 1171377004129 sequence specific DNA binding site [nucleotide binding]; other site 1171377004130 putative cAMP binding site [chemical binding]; other site 1171377004131 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1171377004132 homodimer interface [polypeptide binding]; other site 1171377004133 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1171377004134 active site pocket [active] 1171377004135 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1171377004136 5S rRNA interface [nucleotide binding]; other site 1171377004137 CTC domain interface [polypeptide binding]; other site 1171377004138 L16 interface [polypeptide binding]; other site 1171377004139 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 1171377004140 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1171377004141 Cation efflux family; Region: Cation_efflux; cl00316 1171377004142 hypothetical protein; Validated; Region: PRK02101 1171377004143 exopolyphosphatase; Provisional; Region: PRK10854 1171377004144 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1171377004145 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1171377004146 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 1171377004147 homodimer interface [polypeptide binding]; other site 1171377004148 metal binding site [ion binding]; metal-binding site 1171377004149 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 1171377004150 homodimer interface [polypeptide binding]; other site 1171377004151 active site 1171377004152 putative chemical substrate binding site [chemical binding]; other site 1171377004153 metal binding site [ion binding]; metal-binding site 1171377004154 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1171377004155 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 1171377004156 active site 1171377004157 phosphorylation site [posttranslational modification] 1171377004158 intermolecular recognition site; other site 1171377004159 dimerization interface [polypeptide binding]; other site 1171377004160 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 1171377004161 DNA binding site [nucleotide binding] 1171377004162 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1171377004163 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 1171377004164 dimerization interface [polypeptide binding]; other site 1171377004165 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 1171377004166 dimer interface [polypeptide binding]; other site 1171377004167 phosphorylation site [posttranslational modification] 1171377004168 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 1171377004169 ATP binding site [chemical binding]; other site 1171377004170 Mg2+ binding site [ion binding]; other site 1171377004171 G-X-G motif; other site 1171377004172 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1171377004173 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1171377004174 Walker A/P-loop; other site 1171377004175 ATP binding site [chemical binding]; other site 1171377004176 Q-loop/lid; other site 1171377004177 ABC transporter signature motif; other site 1171377004178 Walker B; other site 1171377004179 D-loop; other site 1171377004180 H-loop/switch region; other site 1171377004181 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1171377004182 FtsX-like permease family; Region: FtsX; pfam02687 1171377004183 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1171377004184 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1171377004185 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 1171377004186 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1171377004187 dimer interface [polypeptide binding]; other site 1171377004188 active site 1171377004189 citrylCoA binding site [chemical binding]; other site 1171377004190 NADH binding [chemical binding]; other site 1171377004191 cationic pore residues; other site 1171377004192 oxalacetate/citrate binding site [chemical binding]; other site 1171377004193 coenzyme A binding site [chemical binding]; other site 1171377004194 catalytic triad [active] 1171377004195 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1171377004196 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1171377004197 substrate binding site [chemical binding]; other site 1171377004198 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1171377004199 substrate binding site [chemical binding]; other site 1171377004200 ligand binding site [chemical binding]; other site 1171377004201 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1171377004202 isocitrate dehydrogenase; Validated; Region: PRK07362 1171377004203 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1171377004204 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1171377004205 transmembrane helices; other site 1171377004206 holo-ACP synthase CitX; Region: citrate_citX; TIGR03124 1171377004207 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1171377004208 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1171377004209 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1171377004210 citrate lyase subunit gamma; Provisional; Region: PRK13253 1171377004211 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 1171377004212 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 1171377004213 putative active site [active] 1171377004214 (T/H)XGH motif; other site 1171377004215 PAS domain; Region: PAS_9; pfam13426 1171377004216 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 1171377004217 putative active site [active] 1171377004218 heme pocket [chemical binding]; other site 1171377004219 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1171377004220 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1171377004221 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 1171377004222 FAD binding pocket [chemical binding]; other site 1171377004223 conserved FAD binding motif [chemical binding]; other site 1171377004224 phosphate binding motif [ion binding]; other site 1171377004225 beta-alpha-beta structure motif; other site 1171377004226 NAD binding pocket [chemical binding]; other site 1171377004227 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1171377004228 FAD binding site [chemical binding]; other site 1171377004229 Domain of unknown function; Region: DUF331; cl01149 1171377004230 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1171377004231 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 1171377004232 S-adenosylmethionine binding site [chemical binding]; other site 1171377004233 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1171377004234 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1171377004235 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1171377004236 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1171377004237 phosphate binding site [ion binding]; other site 1171377004238 putative substrate binding pocket [chemical binding]; other site 1171377004239 dimer interface [polypeptide binding]; other site 1171377004240 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1171377004241 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1171377004242 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1171377004243 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1171377004244 molybdopterin cofactor binding site [chemical binding]; other site 1171377004245 substrate binding site [chemical binding]; other site 1171377004246 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1171377004247 molybdopterin cofactor binding site; other site 1171377004248 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1171377004249 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1171377004250 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1171377004251 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1171377004252 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1171377004253 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1171377004254 Cysteine-rich domain; Region: CCG; pfam02754 1171377004255 Cysteine-rich domain; Region: CCG; pfam02754 1171377004256 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1171377004257 L-lactate permease; Region: Lactate_perm; cl00701 1171377004258 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1171377004259 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1171377004260 folate binding site [chemical binding]; other site 1171377004261 NADP+ binding site [chemical binding]; other site 1171377004262 YcgL domain; Region: YcgL; pfam05166 1171377004263 replicative DNA helicase; Validated; Region: PRK06904 1171377004264 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1171377004265 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 1171377004266 Walker A motif; other site 1171377004267 ATP binding site [chemical binding]; other site 1171377004268 Walker B motif; other site 1171377004269 DNA binding loops [nucleotide binding] 1171377004270 PII uridylyl-transferase; Provisional; Region: glnD; PRK01759 1171377004271 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1171377004272 metal binding triad; other site 1171377004273 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1171377004274 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1171377004275 Zn2+ binding site [ion binding]; other site 1171377004276 Mg2+ binding site [ion binding]; other site 1171377004277 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1171377004278 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1171377004279 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1171377004280 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 1171377004281 putative active site [active] 1171377004282 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1171377004283 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1171377004284 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 1171377004285 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 1171377004286 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1171377004287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1171377004288 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1171377004289 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1171377004290 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1171377004291 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 1171377004292 active site 1171377004293 motif I; other site 1171377004294 motif II; other site 1171377004295 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1171377004296 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 1171377004297 catalytic triad [active] 1171377004298 HemN family oxidoreductase; Provisional; Region: PRK05660 1171377004299 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 1171377004300 FeS/SAM binding site; other site 1171377004301 HemN C-terminal domain; Region: HemN_C; pfam06969 1171377004302 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1171377004303 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1171377004304 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1171377004305 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1171377004306 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1171377004307 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1171377004308 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 1171377004309 TPP-binding site [chemical binding]; other site 1171377004310 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1171377004311 dimer interface [polypeptide binding]; other site 1171377004312 PYR/PP interface [polypeptide binding]; other site 1171377004313 TPP binding site [chemical binding]; other site 1171377004314 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1171377004315 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 1171377004316 E3 interaction surface; other site 1171377004317 lipoyl attachment site [posttranslational modification]; other site 1171377004318 e3 binding domain; Region: E3_binding; pfam02817 1171377004319 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1171377004320 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1171377004321 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1171377004322 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 1171377004323 nucleoside/Zn binding site; other site 1171377004324 dimer interface [polypeptide binding]; other site 1171377004325 catalytic motif [active] 1171377004326 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1171377004327 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 1171377004328 ATP binding site [chemical binding]; other site 1171377004329 Mg++ binding site [ion binding]; other site 1171377004330 motif III; other site 1171377004331 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 1171377004332 nucleotide binding region [chemical binding]; other site 1171377004333 ATP-binding site [chemical binding]; other site 1171377004334 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1171377004335 putative RNA binding site [nucleotide binding]; other site 1171377004336 lipoprotein NlpI; Provisional; Region: PRK11189 1171377004337 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 1171377004338 binding surface 1171377004339 TPR motif; other site 1171377004340 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1171377004341 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1171377004342 RNase E interface [polypeptide binding]; other site 1171377004343 trimer interface [polypeptide binding]; other site 1171377004344 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1171377004345 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1171377004346 RNase E interface [polypeptide binding]; other site 1171377004347 trimer interface [polypeptide binding]; other site 1171377004348 active site 1171377004349 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 1171377004350 putative nucleic acid binding region [nucleotide binding]; other site 1171377004351 G-X-X-G motif; other site 1171377004352 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 1171377004353 RNA binding site [nucleotide binding]; other site 1171377004354 domain interface; other site 1171377004355 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1171377004356 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 1171377004357 putative active site [active] 1171377004358 heme pocket [chemical binding]; other site 1171377004359 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 1171377004360 dimer interface [polypeptide binding]; other site 1171377004361 phosphorylation site [posttranslational modification] 1171377004362 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 1171377004363 ATP binding site [chemical binding]; other site 1171377004364 Mg2+ binding site [ion binding]; other site 1171377004365 G-X-G motif; other site 1171377004366 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 1171377004367 active site 1171377004368 phosphorylation site [posttranslational modification] 1171377004369 intermolecular recognition site; other site 1171377004370 dimerization interface [polypeptide binding]; other site 1171377004371 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 1171377004372 putative binding surface; other site 1171377004373 active site 1171377004374 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1171377004375 hypothetical protein; Provisional; Region: PRK04946 1171377004376 Smr domain; Region: Smr; pfam01713 1171377004377 HemK family putative methylases; Region: hemK_fam; TIGR00536 1171377004378 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 1171377004379 S-adenosylmethionine binding site [chemical binding]; other site 1171377004380 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1171377004381 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1171377004382 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 1171377004383 catalytic triad [active] 1171377004384 dimer interface [polypeptide binding]; other site 1171377004385 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1171377004386 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1171377004387 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 1171377004388 S-adenosylmethionine binding site [chemical binding]; other site 1171377004389 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1171377004390 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1171377004391 active site 1171377004392 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1171377004393 catalytic triad [active] 1171377004394 dimer interface [polypeptide binding]; other site 1171377004395 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1171377004396 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1171377004397 MOSC domain; Region: MOSC; pfam03473 1171377004398 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1171377004399 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1171377004400 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1171377004401 substrate binding pocket [chemical binding]; other site 1171377004402 chain length determination region; other site 1171377004403 substrate-Mg2+ binding site; other site 1171377004404 catalytic residues [active] 1171377004405 aspartate-rich region 1; other site 1171377004406 active site lid residues [active] 1171377004407 aspartate-rich region 2; other site 1171377004408 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1171377004409 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1171377004410 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1171377004411 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1171377004412 SelR domain; Region: SelR; pfam01641 1171377004413 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1171377004414 Flavoprotein; Region: Flavoprotein; pfam02441 1171377004415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 1171377004416 elongation factor P; Validated; Region: PRK00529 1171377004417 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1171377004418 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 1171377004419 RNA binding site [nucleotide binding]; other site 1171377004420 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 1171377004421 RNA binding site [nucleotide binding]; other site 1171377004422 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1171377004423 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1171377004424 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1171377004425 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1171377004426 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 1171377004427 catalytic loop [active] 1171377004428 iron binding site [ion binding]; other site 1171377004429 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1171377004430 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1171377004431 nucleotide binding site [chemical binding]; other site 1171377004432 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1171377004433 SBD interface [polypeptide binding]; other site 1171377004434 Protein of unknown function DUF2625; Region: DUF2625; cl08177 1171377004435 co-chaperone HscB; Provisional; Region: hscB; PRK01773 1171377004436 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 1171377004437 HSP70 interaction site [polypeptide binding]; other site 1171377004438 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1171377004439 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1171377004440 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1171377004441 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1171377004442 active site 1171377004443 trimerization site [polypeptide binding]; other site 1171377004444 cysteine desulfurase; Provisional; Region: PRK14012 1171377004445 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1171377004446 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1171377004447 catalytic residue [active] 1171377004448 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1171377004449 Rrf2 family protein; Region: rrf2_super; TIGR00738 1171377004450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 1171377004451 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 1171377004452 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1171377004453 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1171377004454 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 1171377004455 DNA binding site [nucleotide binding] 1171377004456 active site 1171377004457 hypothetical protein; Validated; Region: PRK01777 1171377004458 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1171377004459 putative coenzyme Q binding site [chemical binding]; other site 1171377004460 selenophosphate synthetase; Provisional; Region: PRK00943 1171377004461 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1171377004462 dimerization interface [polypeptide binding]; other site 1171377004463 putative ATP binding site [chemical binding]; other site 1171377004464 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1171377004465 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1171377004466 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 1171377004467 active site 1171377004468 putative DNA-binding cleft [nucleotide binding]; other site 1171377004469 dimer interface [polypeptide binding]; other site 1171377004470 hypothetical protein; Validated; Region: PRK00110 1171377004471 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 1171377004472 nudix motif; other site 1171377004473 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1171377004474 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1171377004475 dimerization interface 3.5A [polypeptide binding]; other site 1171377004476 active site 1171377004477 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1171377004478 homodecamer interface [polypeptide binding]; other site 1171377004479 GTP cyclohydrolase I; Provisional; Region: PLN03044 1171377004480 active site 1171377004481 putative catalytic site residues [active] 1171377004482 zinc binding site [ion binding]; other site 1171377004483 GTP-CH-I/GFRP interaction surface; other site 1171377004484 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1171377004485 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1171377004486 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1171377004487 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1171377004488 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1171377004489 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1171377004490 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1171377004491 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 1171377004492 DNA binding residues [nucleotide binding] 1171377004493 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1171377004494 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1171377004495 putative active site [active] 1171377004496 catalytic triad [active] 1171377004497 putative dimer interface [polypeptide binding]; other site 1171377004498 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1171377004499 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 1171377004500 Transporter associated domain; Region: CorC_HlyC; smart01091 1171377004501 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 1171377004502 NAD-dependent deacetylase; Provisional; Region: PRK00481 1171377004503 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1171377004504 NAD+ binding site [chemical binding]; other site 1171377004505 substrate binding site [chemical binding]; other site 1171377004506 Zn binding site [ion binding]; other site 1171377004507 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 1171377004508 putative trimer interface [polypeptide binding]; other site 1171377004509 putative CoA binding site [chemical binding]; other site 1171377004510 Protein of unknown function DUF262; Region: DUF262; pfam03235 1171377004511 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1171377004512 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1171377004513 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1171377004514 Protein of unknown function DUF262; Region: DUF262; pfam03235 1171377004515 NAD-dependent deacetylase; Provisional; Region: PRK14138 1171377004516 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cd00296 1171377004517 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 1171377004518 active site 1171377004519 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1171377004520 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1171377004521 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 1171377004522 peptide chain release factor 2; Region: prfB; TIGR00020 1171377004523 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1171377004524 RF-1 domain; Region: RF-1; pfam00472 1171377004525 cystathionine beta-lyase; Provisional; Region: PRK08114 1171377004526 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 1171377004527 homodimer interface [polypeptide binding]; other site 1171377004528 substrate-cofactor binding pocket; other site 1171377004529 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377004530 catalytic residue [active] 1171377004531 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1171377004532 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1171377004533 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1171377004534 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1171377004535 active site 1171377004536 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1171377004537 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1171377004538 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1171377004539 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1171377004540 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1171377004541 DNA binding site [nucleotide binding] 1171377004542 domain linker motif; other site 1171377004543 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1171377004544 dimerization interface [polypeptide binding]; other site 1171377004545 ligand binding site [chemical binding]; other site 1171377004546 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1171377004547 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1171377004548 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 1171377004549 dimer interface [polypeptide binding]; other site 1171377004550 active site 1171377004551 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1171377004552 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 1171377004553 hinge region; other site 1171377004554 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1171377004555 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1171377004556 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1171377004557 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1171377004558 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 1171377004559 N-terminal plug; other site 1171377004560 ligand-binding site [chemical binding]; other site 1171377004561 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1171377004562 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1171377004563 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1171377004564 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1171377004565 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 1171377004566 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1171377004567 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1171377004568 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1171377004569 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1171377004570 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1171377004571 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1171377004572 putative glycosyl transferase; Provisional; Region: PRK10073 1171377004573 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 1171377004574 active site 1171377004575 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1171377004576 HD domain; Region: HD_4; pfam13328 1171377004577 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1171377004578 synthetase active site [active] 1171377004579 NTP binding site [chemical binding]; other site 1171377004580 metal binding site [ion binding]; metal-binding site 1171377004581 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 1171377004582 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1171377004583 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1171377004584 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1171377004585 tRNA; other site 1171377004586 putative tRNA binding site [nucleotide binding]; other site 1171377004587 putative NADP binding site [chemical binding]; other site 1171377004588 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1171377004589 GTP-binding protein Der; Reviewed; Region: PRK00093 1171377004590 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1171377004591 G1 box; other site 1171377004592 GTP/Mg2+ binding site [chemical binding]; other site 1171377004593 Switch I region; other site 1171377004594 G2 box; other site 1171377004595 Switch II region; other site 1171377004596 G3 box; other site 1171377004597 G4 box; other site 1171377004598 G5 box; other site 1171377004599 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1171377004600 G1 box; other site 1171377004601 GTP/Mg2+ binding site [chemical binding]; other site 1171377004602 Switch I region; other site 1171377004603 G2 box; other site 1171377004604 G3 box; other site 1171377004605 Switch II region; other site 1171377004606 G4 box; other site 1171377004607 G5 box; other site 1171377004608 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1171377004609 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1171377004610 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 1171377004611 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09651 1171377004612 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1171377004613 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 1171377004614 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1171377004615 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 1171377004616 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1171377004617 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 1171377004618 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1171377004619 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1171377004620 putative ribose interaction site [chemical binding]; other site 1171377004621 putative ADP binding site [chemical binding]; other site 1171377004622 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1171377004623 active site 1171377004624 nucleotide binding site [chemical binding]; other site 1171377004625 HIGH motif; other site 1171377004626 KMSKS motif; other site 1171377004627 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1171377004628 SurA N-terminal domain; Region: SurA_N; pfam09312 1171377004629 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1171377004630 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1171377004631 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 1171377004632 S-adenosylmethionine binding site [chemical binding]; other site 1171377004633 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1171377004634 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1171377004635 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1171377004636 acyl-activating enzyme (AAE) consensus motif; other site 1171377004637 putative AMP binding site [chemical binding]; other site 1171377004638 putative active site [active] 1171377004639 putative CoA binding site [chemical binding]; other site 1171377004640 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1171377004641 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1171377004642 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1171377004643 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1171377004644 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1171377004645 metal binding triad; other site 1171377004646 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1171377004647 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1171377004648 metal binding triad; other site 1171377004649 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1171377004650 YciI-like protein; Reviewed; Region: PRK11370 1171377004651 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1171377004652 intracellular septation protein A; Reviewed; Region: PRK00259 1171377004653 Protein of unknown function, DUF412; Region: DUF412; cl01183 1171377004654 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1171377004655 OstA-like protein; Region: OstA; pfam03968 1171377004656 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1171377004657 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1171377004658 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 1171377004659 FeS/SAM binding site; other site 1171377004660 HemN C-terminal domain; Region: HemN_C; pfam06969 1171377004661 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1171377004662 Der GTPase activator; Provisional; Region: PRK05244 1171377004663 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1171377004664 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1171377004665 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 1171377004666 homotrimer interaction site [polypeptide binding]; other site 1171377004667 putative active site [active] 1171377004668 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1171377004669 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1171377004670 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 1171377004671 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1171377004672 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1171377004673 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1171377004674 Chorismate mutase type II; Region: CM_2; cl00693 1171377004675 prephenate dehydrogenase; Validated; Region: PRK08507 1171377004676 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1171377004677 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1171377004678 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1171377004679 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1171377004680 putative active site [active] 1171377004681 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1171377004682 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1171377004683 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1171377004684 YccA-like proteins; Region: YccA_like; cd10433 1171377004685 DNA gyrase subunit A; Validated; Region: PRK05560 1171377004686 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 1171377004687 CAP-like domain; other site 1171377004688 active site 1171377004689 primary dimer interface [polypeptide binding]; other site 1171377004690 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1171377004691 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1171377004692 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1171377004693 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1171377004694 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1171377004695 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1171377004696 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1171377004697 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1171377004698 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1171377004699 Walker A/P-loop; other site 1171377004700 ATP binding site [chemical binding]; other site 1171377004701 Q-loop/lid; other site 1171377004702 ABC transporter signature motif; other site 1171377004703 Walker B; other site 1171377004704 D-loop; other site 1171377004705 H-loop/switch region; other site 1171377004706 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1171377004707 LrgA family; Region: LrgA; cl00608 1171377004708 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1171377004709 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1171377004710 ATP binding site [chemical binding]; other site 1171377004711 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1171377004712 recombination factor protein RarA; Reviewed; Region: PRK13342 1171377004713 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 1171377004714 Walker A motif; other site 1171377004715 ATP binding site [chemical binding]; other site 1171377004716 Walker B motif; other site 1171377004717 arginine finger; other site 1171377004718 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1171377004719 rod shape-determining protein MreD; Region: MreD; cl01087 1171377004720 rod shape-determining protein MreC; Provisional; Region: PRK13922 1171377004721 rod shape-determining protein MreC; Region: MreC; pfam04085 1171377004722 rod shape-determining protein MreB; Provisional; Region: PRK13927 1171377004723 MreB and similar proteins; Region: MreB_like; cd10225 1171377004724 nucleotide binding site [chemical binding]; other site 1171377004725 Mg binding site [ion binding]; other site 1171377004726 putative protofilament interaction site [polypeptide binding]; other site 1171377004727 RodZ interaction site [polypeptide binding]; other site 1171377004728 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1171377004729 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1171377004730 ligand binding site [chemical binding]; other site 1171377004731 homodimer interface [polypeptide binding]; other site 1171377004732 NAD(P) binding site [chemical binding]; other site 1171377004733 trimer interface B [polypeptide binding]; other site 1171377004734 trimer interface A [polypeptide binding]; other site 1171377004735 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1171377004736 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1171377004737 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1171377004738 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1171377004739 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 1171377004740 active site 1171377004741 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 1171377004742 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1171377004743 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1171377004744 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 1171377004745 trimer interface [polypeptide binding]; other site 1171377004746 active site 1171377004747 UDP-GlcNAc binding site [chemical binding]; other site 1171377004748 lipid binding site [chemical binding]; lipid-binding site 1171377004749 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1171377004750 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1171377004751 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1171377004752 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1171377004753 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1171377004754 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1171377004755 Surface antigen; Region: Bac_surface_Ag; pfam01103 1171377004756 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1171377004757 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 1171377004758 active site 1171377004759 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 1171377004760 protein binding site [polypeptide binding]; other site 1171377004761 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 1171377004762 protein binding site [polypeptide binding]; other site 1171377004763 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 1171377004764 putative substrate binding region [chemical binding]; other site 1171377004765 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1171377004766 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1171377004767 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1171377004768 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 1171377004769 catalytic residue [active] 1171377004770 putative FPP diphosphate binding site; other site 1171377004771 putative FPP binding hydrophobic cleft; other site 1171377004772 dimer interface [polypeptide binding]; other site 1171377004773 putative IPP diphosphate binding site; other site 1171377004774 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1171377004775 fructokinase; Reviewed; Region: PRK09557 1171377004776 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1171377004777 nucleotide binding site [chemical binding]; other site 1171377004778 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1171377004779 active site 1171377004780 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1171377004781 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 1171377004782 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1171377004783 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1171377004784 putative metal binding site; other site 1171377004785 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1171377004786 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1171377004787 putative active site [active] 1171377004788 argininosuccinate synthase; Validated; Region: PRK05370 1171377004789 argininosuccinate synthase; Provisional; Region: PRK13820 1171377004790 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1171377004791 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1171377004792 Walker A/P-loop; other site 1171377004793 ATP binding site [chemical binding]; other site 1171377004794 Q-loop/lid; other site 1171377004795 ABC transporter signature motif; other site 1171377004796 Walker B; other site 1171377004797 D-loop; other site 1171377004798 H-loop/switch region; other site 1171377004799 NIL domain; Region: NIL; pfam09383 1171377004800 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377004801 dimer interface [polypeptide binding]; other site 1171377004802 conserved gate region; other site 1171377004803 ABC-ATPase subunit interface; other site 1171377004804 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1171377004805 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1171377004806 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 1171377004807 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1171377004808 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 1171377004809 active site 1171377004810 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1171377004811 Aspartase; Region: Aspartase; cd01357 1171377004812 active sites [active] 1171377004813 tetramer interface [polypeptide binding]; other site 1171377004814 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1171377004815 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1171377004816 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1171377004817 active site 1171377004818 NTP binding site [chemical binding]; other site 1171377004819 metal binding triad [ion binding]; metal-binding site 1171377004820 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1171377004821 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1171377004822 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1171377004823 catalytic center binding site [active] 1171377004824 ATP binding site [chemical binding]; other site 1171377004825 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1171377004826 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1171377004827 putative active site [active] 1171377004828 putative metal binding site [ion binding]; other site 1171377004829 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1171377004830 active site 1171377004831 NTP binding site [chemical binding]; other site 1171377004832 metal binding triad [ion binding]; metal-binding site 1171377004833 antibiotic binding site [chemical binding]; other site 1171377004834 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 1171377004835 heat shock protein 90; Provisional; Region: PRK05218 1171377004836 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 1171377004837 ATP binding site [chemical binding]; other site 1171377004838 Mg2+ binding site [ion binding]; other site 1171377004839 G-X-G motif; other site 1171377004840 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1171377004841 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1171377004842 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1171377004843 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1171377004844 RNA binding site [nucleotide binding]; other site 1171377004845 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1171377004846 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1171377004847 FtsX-like permease family; Region: FtsX; pfam02687 1171377004848 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1171377004849 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1171377004850 Walker A/P-loop; other site 1171377004851 ATP binding site [chemical binding]; other site 1171377004852 Q-loop/lid; other site 1171377004853 ABC transporter signature motif; other site 1171377004854 Walker B; other site 1171377004855 D-loop; other site 1171377004856 H-loop/switch region; other site 1171377004857 enolase; Provisional; Region: eno; PRK00077 1171377004858 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 1171377004859 dimer interface [polypeptide binding]; other site 1171377004860 metal binding site [ion binding]; metal-binding site 1171377004861 substrate binding pocket [chemical binding]; other site 1171377004862 Uncharacterized protein conserved in bacteria (DUF2251); Region: DUF2251; pfam10008 1171377004863 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1171377004864 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 1171377004865 active site 1171377004866 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1171377004867 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 1171377004868 ATP binding site [chemical binding]; other site 1171377004869 putative Mg++ binding site [ion binding]; other site 1171377004870 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 1171377004871 nucleotide binding region [chemical binding]; other site 1171377004872 ATP-binding site [chemical binding]; other site 1171377004873 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1171377004874 HRDC domain; Region: HRDC; pfam00570 1171377004875 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1171377004876 putative iron binding site [ion binding]; other site 1171377004877 LexA repressor; Validated; Region: PRK00215 1171377004878 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1171377004879 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 1171377004880 Catalytic site [active] 1171377004881 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1171377004882 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1171377004883 putative acyl-acceptor binding pocket; other site 1171377004884 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1171377004885 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377004886 Walker A/P-loop; other site 1171377004887 ATP binding site [chemical binding]; other site 1171377004888 Q-loop/lid; other site 1171377004889 ABC transporter signature motif; other site 1171377004890 Walker B; other site 1171377004891 D-loop; other site 1171377004892 H-loop/switch region; other site 1171377004893 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1171377004894 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1171377004895 Walker A/P-loop; other site 1171377004896 ATP binding site [chemical binding]; other site 1171377004897 Q-loop/lid; other site 1171377004898 ABC transporter signature motif; other site 1171377004899 Walker B; other site 1171377004900 D-loop; other site 1171377004901 H-loop/switch region; other site 1171377004902 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1171377004903 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1171377004904 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377004905 dimer interface [polypeptide binding]; other site 1171377004906 conserved gate region; other site 1171377004907 ABC-ATPase subunit interface; other site 1171377004908 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1171377004909 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377004910 dimer interface [polypeptide binding]; other site 1171377004911 conserved gate region; other site 1171377004912 putative PBP binding loops; other site 1171377004913 ABC-ATPase subunit interface; other site 1171377004914 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1171377004915 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1171377004916 peptide binding site [polypeptide binding]; other site 1171377004917 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 1171377004918 S-adenosylmethionine binding site [chemical binding]; other site 1171377004919 Protein of unknown function (DUF808); Region: DUF808; cl01002 1171377004920 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1171377004921 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1171377004922 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1171377004923 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1171377004924 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1171377004925 glutamine binding [chemical binding]; other site 1171377004926 catalytic triad [active] 1171377004927 anthranilate synthase component I; Provisional; Region: PRK13564 1171377004928 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1171377004929 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1171377004930 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 1171377004931 active site 1171377004932 8-oxo-dGMP binding site [chemical binding]; other site 1171377004933 nudix motif; other site 1171377004934 metal binding site [ion binding]; metal-binding site 1171377004935 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1171377004936 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1171377004937 SEC-C motif; Region: SEC-C; pfam02810 1171377004938 Protein of unknown function (DUF2547); Region: DUF2547; pfam10818 1171377004939 Protein of unknown function (DUF721); Region: DUF721; cl02324 1171377004940 NlpE N-terminal domain; Region: NlpE; pfam04170 1171377004941 BolA-like protein; Region: BolA; cl00386 1171377004942 hypothetical protein; Provisional; Region: PRK11627 1171377004943 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1171377004944 RNA methyltransferase, RsmE family; Region: TIGR00046 1171377004945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1171377004946 hypothetical protein; Validated; Region: PRK00228 1171377004947 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1171377004948 transketolase; Reviewed; Region: PRK12753 1171377004949 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 1171377004950 TPP-binding site [chemical binding]; other site 1171377004951 dimer interface [polypeptide binding]; other site 1171377004952 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 1171377004953 PYR/PP interface [polypeptide binding]; other site 1171377004954 dimer interface [polypeptide binding]; other site 1171377004955 TPP binding site [chemical binding]; other site 1171377004956 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1171377004957 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1171377004958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377004959 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1171377004960 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 1171377004961 dimerization interface [polypeptide binding]; other site 1171377004962 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1171377004963 active site 1171377004964 superoxide dismutase; Provisional; Region: PRK10925 1171377004965 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1171377004966 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1171377004967 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1171377004968 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377004969 trimer interface [polypeptide binding]; other site 1171377004970 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377004971 trimer interface [polypeptide binding]; other site 1171377004972 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377004973 trimer interface [polypeptide binding]; other site 1171377004974 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1171377004975 Haemagglutinin; Region: HIM; pfam05662 1171377004976 YadA-like C-terminal region; Region: YadA; pfam03895 1171377004977 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1171377004978 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1171377004979 putative catalytic residues [active] 1171377004980 putative nucleotide binding site [chemical binding]; other site 1171377004981 putative aspartate binding site [chemical binding]; other site 1171377004982 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1171377004983 dimer interface [polypeptide binding]; other site 1171377004984 putative threonine allosteric regulatory site; other site 1171377004985 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1171377004986 putative threonine allosteric regulatory site; other site 1171377004987 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1171377004988 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1171377004989 homoserine kinase; Provisional; Region: PRK01212 1171377004990 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1171377004991 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1171377004992 catalytic core [active] 1171377004993 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 1171377004994 pyruvate kinase; Provisional; Region: PRK05826 1171377004995 active site 1171377004996 domain interfaces; other site 1171377004997 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1171377004998 AAA domain; Region: AAA_30; pfam13604 1171377004999 Family description; Region: UvrD_C_2; pfam13538 1171377005000 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1171377005001 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1171377005002 GTPase RsgA; Reviewed; Region: PRK12288 1171377005003 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 1171377005004 RNA binding site [nucleotide binding]; other site 1171377005005 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1171377005006 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1171377005007 GTP/Mg2+ binding site [chemical binding]; other site 1171377005008 G4 box; other site 1171377005009 G5 box; other site 1171377005010 G1 box; other site 1171377005011 Switch I region; other site 1171377005012 G2 box; other site 1171377005013 G3 box; other site 1171377005014 Switch II region; other site 1171377005015 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1171377005016 Predicted membrane protein [Function unknown]; Region: COG2259 1171377005017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377005018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377005019 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 1171377005020 putative effector binding pocket; other site 1171377005021 dimerization interface [polypeptide binding]; other site 1171377005022 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1171377005023 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 1171377005024 ABC-ATPase subunit interface; other site 1171377005025 dimer interface [polypeptide binding]; other site 1171377005026 putative PBP binding regions; other site 1171377005027 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1171377005028 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 1171377005029 ABC-ATPase subunit interface; other site 1171377005030 dimer interface [polypeptide binding]; other site 1171377005031 putative PBP binding regions; other site 1171377005032 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 1171377005033 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1171377005034 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 1171377005035 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1171377005036 metal binding site [ion binding]; metal-binding site 1171377005037 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1171377005038 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 1171377005039 metal-binding site [ion binding] 1171377005040 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1171377005041 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1171377005042 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 1171377005043 metal-binding site [ion binding] 1171377005044 xanthine permease; Region: pbuX; TIGR03173 1171377005045 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 1171377005046 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1171377005047 catalytic residues [active] 1171377005048 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1171377005049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377005050 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1171377005051 substrate binding site [chemical binding]; other site 1171377005052 dimerization interface [polypeptide binding]; other site 1171377005053 dUMP phosphatase; Provisional; Region: PRK09449 1171377005054 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 1171377005055 motif II; other site 1171377005056 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 1171377005057 homotrimer interaction site [polypeptide binding]; other site 1171377005058 putative active site [active] 1171377005059 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1171377005060 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 1171377005061 homodimer interface [polypeptide binding]; other site 1171377005062 substrate-cofactor binding pocket; other site 1171377005063 catalytic residue [active] 1171377005064 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1171377005065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377005066 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1171377005067 dimerization interface [polypeptide binding]; other site 1171377005068 substrate binding pocket [chemical binding]; other site 1171377005069 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 1171377005070 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1171377005071 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1171377005072 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1171377005073 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1171377005074 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1171377005075 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1171377005076 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1171377005077 Protein export membrane protein; Region: SecD_SecF; pfam02355 1171377005078 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1171377005079 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1171377005080 TM-ABC transporter signature motif; other site 1171377005081 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1171377005082 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1171377005083 Walker A/P-loop; other site 1171377005084 ATP binding site [chemical binding]; other site 1171377005085 Q-loop/lid; other site 1171377005086 ABC transporter signature motif; other site 1171377005087 Walker B; other site 1171377005088 D-loop; other site 1171377005089 H-loop/switch region; other site 1171377005090 hypothetical protein; Provisional; Region: PRK06762 1171377005091 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1171377005092 23S rRNA binding site [nucleotide binding]; other site 1171377005093 L21 binding site [polypeptide binding]; other site 1171377005094 L13 binding site [polypeptide binding]; other site 1171377005095 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1171377005096 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1171377005097 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1171377005098 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1171377005099 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1171377005100 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 1171377005101 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1171377005102 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 1171377005103 active site 1171377005104 dimer interface [polypeptide binding]; other site 1171377005105 motif 1; other site 1171377005106 motif 2; other site 1171377005107 motif 3; other site 1171377005108 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1171377005109 anticodon binding site; other site 1171377005110 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1171377005111 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1171377005112 HIGH motif; other site 1171377005113 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1171377005114 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1171377005115 active site 1171377005116 KMSKS motif; other site 1171377005117 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1171377005118 tRNA binding surface [nucleotide binding]; other site 1171377005119 Lipopolysaccharide-assembly; Region: LptE; cl01125 1171377005120 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1171377005121 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1171377005122 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1171377005123 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1171377005124 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 1171377005125 metal-binding site [ion binding] 1171377005126 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1171377005127 GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis; Region: GT2_AmsE_like; cd04195 1171377005128 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1171377005129 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 1171377005130 active site 1171377005131 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 1171377005132 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1171377005133 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1171377005134 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1171377005135 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1171377005136 ligand binding site; other site 1171377005137 tetramer interface; other site 1171377005138 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1171377005139 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1171377005140 putative active site [active] 1171377005141 Cupin; Region: Cupin_6; pfam12852 1171377005142 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1171377005143 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1171377005144 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1171377005145 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377005146 putative PBP binding loops; other site 1171377005147 dimer interface [polypeptide binding]; other site 1171377005148 ABC-ATPase subunit interface; other site 1171377005149 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1171377005150 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377005151 dimer interface [polypeptide binding]; other site 1171377005152 conserved gate region; other site 1171377005153 putative PBP binding loops; other site 1171377005154 ABC-ATPase subunit interface; other site 1171377005155 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1171377005156 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 1171377005157 substrate binding pocket [chemical binding]; other site 1171377005158 membrane-bound complex binding site; other site 1171377005159 hinge residues; other site 1171377005160 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1171377005161 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377005162 Walker A/P-loop; other site 1171377005163 ATP binding site [chemical binding]; other site 1171377005164 Q-loop/lid; other site 1171377005165 ABC transporter signature motif; other site 1171377005166 Walker B; other site 1171377005167 D-loop; other site 1171377005168 H-loop/switch region; other site 1171377005169 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1171377005170 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1171377005171 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1171377005172 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1171377005173 DsbD alpha interface [polypeptide binding]; other site 1171377005174 catalytic residues [active] 1171377005175 SnoaL-like domain; Region: SnoaL_4; pfam13577 1171377005176 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-3; cd12810 1171377005177 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1171377005178 catalytic site [active] 1171377005179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377005180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377005181 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 1171377005182 putative effector binding pocket; other site 1171377005183 putative dimerization interface [polypeptide binding]; other site 1171377005184 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1171377005185 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1171377005186 PhnA protein; Region: PhnA; pfam03831 1171377005187 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 1171377005188 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1171377005189 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1171377005190 active site 1171377005191 catalytic residues [active] 1171377005192 metal binding site [ion binding]; metal-binding site 1171377005193 homodimer binding site [polypeptide binding]; other site 1171377005194 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 1171377005195 carboxyltransferase (CT) interaction site; other site 1171377005196 biotinylation site [posttranslational modification]; other site 1171377005197 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK02919 1171377005198 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1171377005199 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1171377005200 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1171377005201 putative active site [active] 1171377005202 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1171377005203 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1171377005204 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1171377005205 DNA ligase; Provisional; Region: PRK09125 1171377005206 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1171377005207 DNA binding site [nucleotide binding] 1171377005208 active site 1171377005209 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 1171377005210 DNA binding site [nucleotide binding] 1171377005211 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1171377005212 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 1171377005213 interface (dimer of trimers) [polypeptide binding]; other site 1171377005214 Substrate-binding/catalytic site; other site 1171377005215 Zn-binding sites [ion binding]; other site 1171377005216 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1171377005217 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1171377005218 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1171377005219 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1171377005220 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1171377005221 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1171377005222 putative active site [active] 1171377005223 putative PHP Thumb interface [polypeptide binding]; other site 1171377005224 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 1171377005225 generic binding surface II; other site 1171377005226 generic binding surface I; other site 1171377005227 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1171377005228 O-Antigen ligase; Region: Wzy_C; pfam04932 1171377005229 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1171377005230 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1171377005231 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 1171377005232 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1171377005233 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1171377005234 active site 1171377005235 (T/H)XGH motif; other site 1171377005236 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1171377005237 catalytic site [active] 1171377005238 putative active site [active] 1171377005239 putative substrate binding site [chemical binding]; other site 1171377005240 dimer interface [polypeptide binding]; other site 1171377005241 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1171377005242 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 1171377005243 active site 1171377005244 metal binding site [ion binding]; metal-binding site 1171377005245 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1171377005246 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1171377005247 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1171377005248 HlyD family secretion protein; Region: HlyD_3; pfam13437 1171377005249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377005250 ABC transporter signature motif; other site 1171377005251 Walker B; other site 1171377005252 D-loop; other site 1171377005253 H-loop/switch region; other site 1171377005254 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1171377005255 Part of AAA domain; Region: AAA_19; pfam13245 1171377005256 Family description; Region: UvrD_C_2; pfam13538 1171377005257 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1171377005258 Part of AAA domain; Region: AAA_19; pfam13245 1171377005259 Family description; Region: UvrD_C_2; pfam13538 1171377005260 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1171377005261 2-isopropylmalate synthase; Validated; Region: PRK00915 1171377005262 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1171377005263 active site 1171377005264 catalytic residues [active] 1171377005265 metal binding site [ion binding]; metal-binding site 1171377005266 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1171377005267 putative hydrolase; Provisional; Region: PRK10976 1171377005268 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 1171377005269 active site 1171377005270 motif I; other site 1171377005271 motif II; other site 1171377005272 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 1171377005273 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1171377005274 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1171377005275 HlyD family secretion protein; Region: HlyD_3; pfam13437 1171377005276 aminopeptidase B; Provisional; Region: PRK05015 1171377005277 Peptidase; Region: DUF3663; pfam12404 1171377005278 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 1171377005279 interface (dimer of trimers) [polypeptide binding]; other site 1171377005280 Substrate-binding/catalytic site; other site 1171377005281 Zn-binding sites [ion binding]; other site 1171377005282 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 1171377005283 NlpC/P60 family; Region: NLPC_P60; pfam00877 1171377005284 endonuclease IV; Provisional; Region: PRK01060 1171377005285 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; cd00019 1171377005286 AP (apurinic/apyrimidinic) site pocket; other site 1171377005287 DNA interaction; other site 1171377005288 Metal-binding active site; metal-binding site 1171377005289 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1171377005290 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1171377005291 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1171377005292 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1171377005293 FtsX-like permease family; Region: FtsX; pfam02687 1171377005294 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1171377005295 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1171377005296 HlyD family secretion protein; Region: HlyD_3; pfam13437 1171377005297 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1171377005298 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1171377005299 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1171377005300 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 1171377005301 Walker A/P-loop; other site 1171377005302 ATP binding site [chemical binding]; other site 1171377005303 Q-loop/lid; other site 1171377005304 ABC transporter signature motif; other site 1171377005305 Walker B; other site 1171377005306 D-loop; other site 1171377005307 H-loop/switch region; other site 1171377005308 RTX N-terminal domain; Region: RTX; pfam02382 1171377005309 RTX C-terminal domain; Region: RTX_C; pfam08339 1171377005310 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1171377005311 glycerate dehydrogenase; Provisional; Region: PRK06932 1171377005312 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1171377005313 putative ligand binding site [chemical binding]; other site 1171377005314 putative NAD binding site [chemical binding]; other site 1171377005315 catalytic site [active] 1171377005316 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1171377005317 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1171377005318 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1171377005319 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1171377005320 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1171377005321 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 1171377005322 RDD family; Region: RDD; pfam06271 1171377005323 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1171377005324 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1171377005325 RF-1 domain; Region: RF-1; pfam00472 1171377005326 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 1171377005327 IHF dimer interface [polypeptide binding]; other site 1171377005328 IHF - DNA interface [nucleotide binding]; other site 1171377005329 Protein of unknown function (DUF416); Region: DUF416; pfam04222 1171377005330 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 1171377005331 substrate binding site [chemical binding]; other site 1171377005332 active site 1171377005333 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1171377005334 active site 1171377005335 phosphate binding residues; other site 1171377005336 catalytic residues [active] 1171377005337 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1171377005338 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1171377005339 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 1171377005340 substrate binding pocket [chemical binding]; other site 1171377005341 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 1171377005342 B12 binding site [chemical binding]; other site 1171377005343 cobalt ligand [ion binding]; other site 1171377005344 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1171377005345 TIR domain; Region: TIR_2; pfam13676 1171377005346 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1171377005347 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1171377005348 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 1171377005349 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1171377005350 putative metal binding site [ion binding]; other site 1171377005351 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1171377005352 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1171377005353 putative metal binding site [ion binding]; other site 1171377005354 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1171377005355 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 1171377005356 non-specific DNA binding site [nucleotide binding]; other site 1171377005357 salt bridge; other site 1171377005358 sequence-specific DNA binding site [nucleotide binding]; other site 1171377005359 HipA N-terminal domain; Region: couple_hipA; TIGR03071 1171377005360 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1171377005361 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1171377005362 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1171377005363 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 1171377005364 non-specific DNA binding site [nucleotide binding]; other site 1171377005365 salt bridge; other site 1171377005366 sequence-specific DNA binding site [nucleotide binding]; other site 1171377005367 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1171377005368 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1171377005369 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377005370 ABC transporter signature motif; other site 1171377005371 Walker B; other site 1171377005372 D-loop; other site 1171377005373 H-loop/switch region; other site 1171377005374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377005375 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1171377005376 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 1171377005377 catalytic residues [active] 1171377005378 Rhomboid family; Region: Rhomboid; pfam01694 1171377005379 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1171377005380 active site 1171377005381 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1171377005382 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1171377005383 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1171377005384 amidase catalytic site [active] 1171377005385 Zn binding residues [ion binding]; other site 1171377005386 substrate binding site [chemical binding]; other site 1171377005387 hypothetical protein; Validated; Region: PRK06886 1171377005388 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 1171377005389 active site 1171377005390 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1171377005391 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1171377005392 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1171377005393 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1171377005394 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1171377005395 Walker A/P-loop; other site 1171377005396 ATP binding site [chemical binding]; other site 1171377005397 Q-loop/lid; other site 1171377005398 ABC transporter signature motif; other site 1171377005399 Walker B; other site 1171377005400 D-loop; other site 1171377005401 H-loop/switch region; other site 1171377005402 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377005403 Walker A/P-loop; other site 1171377005404 ATP binding site [chemical binding]; other site 1171377005405 Q-loop/lid; other site 1171377005406 ABC transporter signature motif; other site 1171377005407 Walker B; other site 1171377005408 D-loop; other site 1171377005409 H-loop/switch region; other site 1171377005410 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1171377005411 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1171377005412 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1171377005413 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1171377005414 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1171377005415 HlyD family secretion protein; Region: HlyD_3; pfam13437 1171377005416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1171377005417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1171377005418 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1171377005419 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1171377005420 putative ATP binding site [chemical binding]; other site 1171377005421 putative substrate interface [chemical binding]; other site 1171377005422 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1171377005423 Thiamine pyrophosphokinase; Region: TPK; cd07995 1171377005424 active site 1171377005425 dimerization interface [polypeptide binding]; other site 1171377005426 thiamine binding site [chemical binding]; other site 1171377005427 ABC transporter ATPase component; Reviewed; Region: PRK11147 1171377005428 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377005429 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377005430 ABC transporter; Region: ABC_tran_2; pfam12848 1171377005431 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1171377005432 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1171377005433 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 1171377005434 non-specific DNA binding site [nucleotide binding]; other site 1171377005435 salt bridge; other site 1171377005436 sequence-specific DNA binding site [nucleotide binding]; other site 1171377005437 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1171377005438 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 1171377005439 ATP binding site [chemical binding]; other site 1171377005440 Mg2+ binding site [ion binding]; other site 1171377005441 G-X-G motif; other site 1171377005442 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 1171377005443 anchoring element; other site 1171377005444 dimer interface [polypeptide binding]; other site 1171377005445 ATP binding site [chemical binding]; other site 1171377005446 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 1171377005447 active site 1171377005448 metal binding site [ion binding]; metal-binding site 1171377005449 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1171377005450 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 1171377005451 active site 1171377005452 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1171377005453 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1171377005454 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1171377005455 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1171377005456 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1171377005457 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 1171377005458 hinge; other site 1171377005459 active site 1171377005460 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1171377005461 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1171377005462 anti sigma factor interaction site; other site 1171377005463 regulatory phosphorylation site [posttranslational modification]; other site 1171377005464 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1171377005465 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1171377005466 mce related protein; Region: MCE; pfam02470 1171377005467 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1171377005468 conserved hypothetical integral membrane protein; Region: TIGR00056 1171377005469 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1171377005470 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1171377005471 Walker A/P-loop; other site 1171377005472 ATP binding site [chemical binding]; other site 1171377005473 Q-loop/lid; other site 1171377005474 ABC transporter signature motif; other site 1171377005475 Walker B; other site 1171377005476 D-loop; other site 1171377005477 H-loop/switch region; other site 1171377005478 outer membrane lipoprotein; Provisional; Region: PRK11023 1171377005479 BON domain; Region: BON; pfam04972 1171377005480 BON domain; Region: BON; cl02771 1171377005481 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 1171377005482 dimer interface [polypeptide binding]; other site 1171377005483 active site 1171377005484 hypothetical protein; Reviewed; Region: PRK12497 1171377005485 LppC putative lipoprotein; Region: LppC; pfam04348 1171377005486 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1171377005487 putative ligand binding site [chemical binding]; other site 1171377005488 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1171377005489 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1171377005490 putative SAM binding site [chemical binding]; other site 1171377005491 putative homodimer interface [polypeptide binding]; other site 1171377005492 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1171377005493 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1171377005494 dimerization interface [polypeptide binding]; other site 1171377005495 DPS ferroxidase diiron center [ion binding]; other site 1171377005496 ion pore; other site 1171377005497 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 1171377005498 active site 1171377005499 hypothetical protein; Provisional; Region: PRK11212 1171377005500 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1171377005501 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1171377005502 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1171377005503 G1 box; other site 1171377005504 GTP/Mg2+ binding site [chemical binding]; other site 1171377005505 Switch I region; other site 1171377005506 G2 box; other site 1171377005507 Switch II region; other site 1171377005508 G3 box; other site 1171377005509 G4 box; other site 1171377005510 G5 box; other site 1171377005511 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1171377005512 Protein of unknown function (DUF535); Region: DUF535; cl01128 1171377005513 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1171377005514 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1171377005515 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1171377005516 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1171377005517 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1171377005518 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1171377005519 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1171377005520 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1171377005521 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1171377005522 [4Fe-4S] binding site [ion binding]; other site 1171377005523 molybdopterin cofactor binding site; other site 1171377005524 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1171377005525 molybdopterin cofactor binding site; other site 1171377005526 NapD protein; Region: NapD; pfam03927 1171377005527 ferredoxin-type protein NapF; Region: napF; TIGR00402 1171377005528 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1171377005529 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1171377005530 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1171377005531 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1171377005532 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 1171377005533 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1171377005534 substrate binding site [chemical binding]; other site 1171377005535 hexamer interface [polypeptide binding]; other site 1171377005536 metal binding site [ion binding]; metal-binding site 1171377005537 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 1171377005538 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377005539 putative substrate translocation pore; other site 1171377005540 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1171377005541 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1171377005542 active site 1171377005543 catalytic site [active] 1171377005544 metal binding site [ion binding]; metal-binding site 1171377005545 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 1171377005546 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1171377005547 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 1171377005548 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1171377005549 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1171377005550 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 1171377005551 Cysteine-rich domain; Region: CCG; pfam02754 1171377005552 Cysteine-rich domain; Region: CCG; pfam02754 1171377005553 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1171377005554 Predicted transcriptional regulator [Transcription]; Region: COG2932 1171377005555 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 1171377005556 Catalytic site [active] 1171377005557 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 1171377005558 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1171377005559 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 1171377005560 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 1171377005561 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1171377005562 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 1171377005563 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1171377005564 non-specific DNA binding site [nucleotide binding]; other site 1171377005565 salt bridge; other site 1171377005566 sequence-specific DNA binding site [nucleotide binding]; other site 1171377005567 Mu B transposition protein, C terminal; Region: Phage-MuB_C; pfam09077 1171377005568 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]; Region: COG4396 1171377005569 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 1171377005570 E3 ubiquitin-protein ligase UBR4; Region: E3_UbLigase_R4; pfam13764 1171377005571 Uncharacterized conserved protein [Function unknown]; Region: COG5566 1171377005572 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1171377005573 amidase catalytic site [active] 1171377005574 Zn binding residues [ion binding]; other site 1171377005575 substrate binding site [chemical binding]; other site 1171377005576 Protein of unknown function (DUF2644); Region: DUF2644; pfam10841 1171377005577 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 1171377005578 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1171377005579 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1171377005580 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1171377005581 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 1171377005582 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 1171377005583 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 1171377005584 Protein of unknown function (DUF935); Region: DUF935; pfam06074 1171377005585 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 1171377005586 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 1171377005587 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1171377005588 Mu-like prophage I protein [General function prediction only]; Region: COG4388 1171377005589 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1171377005590 LEM-like domain of lamina-associated polypeptide 2 (LAP2) and similar proteins; Region: LEM_like; cd12935 1171377005591 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 1171377005592 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 1171377005593 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 1171377005594 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 1171377005595 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1171377005596 Phage tail tube protein; Region: Tail_tube; pfam10618 1171377005597 Mu-like prophage FluMu protein gp41 [Function unknown]; Region: COG4518 1171377005598 Mu-like prophage protein [General function prediction only]; Region: COG3941 1171377005599 tape measure domain; Region: tape_meas_nterm; TIGR02675 1171377005600 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 1171377005601 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 1171377005602 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1171377005603 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 1171377005604 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 1171377005605 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1171377005606 Mu-like prophage protein gp46 [Function unknown]; Region: COG4381 1171377005607 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1171377005608 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 1171377005609 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 1171377005610 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1171377005611 amphipathic channel; other site 1171377005612 Asn-Pro-Ala signature motifs; other site 1171377005613 glycerol kinase; Provisional; Region: glpK; PRK00047 1171377005614 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1171377005615 N- and C-terminal domain interface [polypeptide binding]; other site 1171377005616 active site 1171377005617 MgATP binding site [chemical binding]; other site 1171377005618 catalytic site [active] 1171377005619 metal binding site [ion binding]; metal-binding site 1171377005620 glycerol binding site [chemical binding]; other site 1171377005621 homotetramer interface [polypeptide binding]; other site 1171377005622 homodimer interface [polypeptide binding]; other site 1171377005623 FBP binding site [chemical binding]; other site 1171377005624 protein IIAGlc interface [polypeptide binding]; other site 1171377005625 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1171377005626 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1171377005627 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1171377005628 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1171377005629 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1171377005630 TrkA-N domain; Region: TrkA_N; pfam02254 1171377005631 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 1171377005632 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1171377005633 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1171377005634 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1171377005635 cytochrome c nitrite reductase, accessory protein NrfF; Region: cyt_nit_nrfF; TIGR03147 1171377005636 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 1171377005637 binding surface 1171377005638 TPR motif; other site 1171377005639 Dihydroorotate dehydrogenase (DHOD) class 1A FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1A_like; cd04741 1171377005640 active site 1171377005641 FMN binding site [chemical binding]; other site 1171377005642 substrate binding site [chemical binding]; other site 1171377005643 catalytic residues [active] 1171377005644 homodimer interface [polypeptide binding]; other site 1171377005645 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1171377005646 Isochorismatase family; Region: Isochorismatase; pfam00857 1171377005647 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 1171377005648 catalytic triad [active] 1171377005649 conserved cis-peptide bond; other site 1171377005650 Cupin; Region: Cupin_6; pfam12852 1171377005651 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1171377005652 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1171377005653 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1171377005654 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1171377005655 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1171377005656 HIGH motif; other site 1171377005657 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1171377005658 active site 1171377005659 KMSKS motif; other site 1171377005660 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1171377005661 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1171377005662 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 1171377005663 putative active site [active] 1171377005664 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 1171377005665 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1171377005666 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1171377005667 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1171377005668 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1171377005669 PhoH-like protein; Region: PhoH; pfam02562 1171377005670 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1171377005671 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1171377005672 para-aminobenzoate synthase component I; Validated; Region: PRK07093 1171377005673 hypothetical protein; Provisional; Region: PRK07101 1171377005674 recombinase A; Provisional; Region: recA; PRK09354 1171377005675 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 1171377005676 hexamer interface [polypeptide binding]; other site 1171377005677 Walker A motif; other site 1171377005678 ATP binding site [chemical binding]; other site 1171377005679 Walker B motif; other site 1171377005680 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1171377005681 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1171377005682 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1171377005683 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1171377005684 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1171377005685 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1171377005686 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1171377005687 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1171377005688 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1171377005689 shikimate binding site; other site 1171377005690 NAD(P) binding site [chemical binding]; other site 1171377005691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1171377005692 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1171377005693 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1171377005694 active site 1171377005695 dimer interface [polypeptide binding]; other site 1171377005696 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1171377005697 dimer interface [polypeptide binding]; other site 1171377005698 active site 1171377005699 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1171377005700 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 1171377005701 active site 1171377005702 Integrase core domain; Region: rve_2; pfam13333 1171377005703 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1171377005704 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1171377005705 Carbon starvation protein CstA; Region: CstA; pfam02554 1171377005706 Carbon starvation protein CstA; Region: CstA; pfam02554 1171377005707 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1171377005708 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1171377005709 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1171377005710 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 1171377005711 protein binding site [polypeptide binding]; other site 1171377005712 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 1171377005713 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1171377005714 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 1171377005715 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 1171377005716 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 1171377005717 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1171377005718 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1171377005719 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1171377005720 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1171377005721 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1171377005722 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1171377005723 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1171377005724 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1171377005725 Predicted membrane protein [Function unknown]; Region: COG2431 1171377005726 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1171377005727 active site 1171377005728 DNA polymerase IV; Validated; Region: PRK02406 1171377005729 DNA binding site [nucleotide binding] 1171377005730 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1171377005731 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1171377005732 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1171377005733 active site 1171377005734 dimer interface [polypeptide binding]; other site 1171377005735 metal binding site [ion binding]; metal-binding site 1171377005736 shikimate kinase; Reviewed; Region: aroK; PRK00131 1171377005737 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 1171377005738 ADP binding site [chemical binding]; other site 1171377005739 magnesium binding site [ion binding]; other site 1171377005740 putative shikimate binding site; other site 1171377005741 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1171377005742 Transglycosylase; Region: Transgly; pfam00912 1171377005743 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1171377005744 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1171377005745 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1171377005746 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1171377005747 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1171377005748 putative RNA binding site [nucleotide binding]; other site 1171377005749 thiamine monophosphate kinase; Provisional; Region: PRK05731 1171377005750 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1171377005751 ATP binding site [chemical binding]; other site 1171377005752 dimerization interface [polypeptide binding]; other site 1171377005753 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1171377005754 tetramer interfaces [polypeptide binding]; other site 1171377005755 binuclear metal-binding site [ion binding]; other site 1171377005756 LysE type translocator; Region: LysE; cl00565 1171377005757 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1171377005758 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377005759 Walker A/P-loop; other site 1171377005760 ATP binding site [chemical binding]; other site 1171377005761 Q-loop/lid; other site 1171377005762 ABC transporter signature motif; other site 1171377005763 Walker B; other site 1171377005764 D-loop; other site 1171377005765 H-loop/switch region; other site 1171377005766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377005767 Walker A/P-loop; other site 1171377005768 ATP binding site [chemical binding]; other site 1171377005769 Q-loop/lid; other site 1171377005770 ABC transporter signature motif; other site 1171377005771 Walker B; other site 1171377005772 D-loop; other site 1171377005773 H-loop/switch region; other site 1171377005774 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1171377005775 binding surface 1171377005776 TPR motif; other site 1171377005777 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 1171377005778 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1171377005779 Ca binding site [ion binding]; other site 1171377005780 active site 1171377005781 catalytic site [active] 1171377005782 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1171377005783 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 1171377005784 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1171377005785 active site turn [active] 1171377005786 phosphorylation site [posttranslational modification] 1171377005787 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1171377005788 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 1171377005789 TPR motif; other site 1171377005790 binding surface 1171377005791 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1171377005792 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 1171377005793 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1171377005794 active site 1171377005795 motif I; other site 1171377005796 motif II; other site 1171377005797 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 1171377005798 motif II; other site 1171377005799 DNA utilization protein GntX; Provisional; Region: PRK11595 1171377005800 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1171377005801 active site 1171377005802 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1171377005803 active site 1171377005804 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1171377005805 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1171377005806 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1171377005807 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1171377005808 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1171377005809 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 1171377005810 Walker A motif; other site 1171377005811 ATP binding site [chemical binding]; other site 1171377005812 Walker B motif; other site 1171377005813 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1171377005814 Clp protease; Region: CLP_protease; pfam00574 1171377005815 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1171377005816 oligomer interface [polypeptide binding]; other site 1171377005817 active site residues [active] 1171377005818 Fe-S metabolism associated domain; Region: SufE; cl00951 1171377005819 Predicted permeases [General function prediction only]; Region: COG0679 1171377005820 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1171377005821 TPR motif; other site 1171377005822 binding surface 1171377005823 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1171377005824 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1171377005825 glutamine binding [chemical binding]; other site 1171377005826 catalytic triad [active] 1171377005827 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1171377005828 RmuC family; Region: RmuC; pfam02646 1171377005829 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1171377005830 ligand binding site [chemical binding]; other site 1171377005831 active site 1171377005832 UGI interface [polypeptide binding]; other site 1171377005833 catalytic site [active] 1171377005834 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1171377005835 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 1171377005836 16S/18S rRNA binding site [nucleotide binding]; other site 1171377005837 S13e-L30e interaction site [polypeptide binding]; other site 1171377005838 25S rRNA binding site [nucleotide binding]; other site 1171377005839 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1171377005840 periplasmic folding chaperone; Provisional; Region: PRK10788 1171377005841 SurA N-terminal domain; Region: SurA_N_3; cl07813 1171377005842 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1171377005843 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1171377005844 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 1171377005845 catalytic motif [active] 1171377005846 Zn binding site [ion binding]; other site 1171377005847 RibD C-terminal domain; Region: RibD_C; cl17279 1171377005848 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1171377005849 Lumazine binding domain; Region: Lum_binding; pfam00677 1171377005850 Lumazine binding domain; Region: Lum_binding; pfam00677 1171377005851 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1171377005852 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1171377005853 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 1171377005854 dimerization interface [polypeptide binding]; other site 1171377005855 active site 1171377005856 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 1171377005857 homopentamer interface [polypeptide binding]; other site 1171377005858 active site 1171377005859 Uncharacterized conserved protein [Function unknown]; Region: COG1801 1171377005860 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1171377005861 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1171377005862 active site residue [active] 1171377005863 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1171377005864 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 1171377005865 gating phenylalanine in ion channel; other site 1171377005866 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 1171377005867 dimerization interface [polypeptide binding]; other site 1171377005868 putative DNA binding site [nucleotide binding]; other site 1171377005869 putative Zn2+ binding site [ion binding]; other site 1171377005870 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1171377005871 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1171377005872 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 1171377005873 RNA binding surface [nucleotide binding]; other site 1171377005874 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1171377005875 probable active site [active] 1171377005876 biotin synthase; Provisional; Region: PRK15108 1171377005877 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 1171377005878 FeS/SAM binding site; other site 1171377005879 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1171377005880 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1171377005881 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1171377005882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1171377005883 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1171377005884 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1171377005885 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1171377005886 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1171377005887 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 1171377005888 rRNA binding site [nucleotide binding]; other site 1171377005889 predicted 30S ribosome binding site; other site 1171377005890 threonine synthase; Validated; Region: PRK09225 1171377005891 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1171377005892 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1171377005893 catalytic residue [active] 1171377005894 putative global regulator; Reviewed; Region: PRK09559 1171377005895 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1171377005896 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1171377005897 RNA/DNA hybrid binding site [nucleotide binding]; other site 1171377005898 active site 1171377005899 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1171377005900 Paraquat-inducible protein A; Region: PqiA; pfam04403 1171377005901 Paraquat-inducible protein A; Region: PqiA; pfam04403 1171377005902 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1171377005903 tellurite resistance protein TehB; Provisional; Region: PRK12335 1171377005904 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1171377005905 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 1171377005906 S-adenosylmethionine binding site [chemical binding]; other site 1171377005907 Flavin Reductases; Region: FlaRed; cl00801 1171377005908 dsDNA-mimic protein; Reviewed; Region: PRK05094 1171377005909 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1171377005910 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1171377005911 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1171377005912 heme binding site [chemical binding]; other site 1171377005913 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1171377005914 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK06901 1171377005915 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 1171377005916 putative deacylase active site [active] 1171377005917 LexA regulated protein; Provisional; Region: PRK11675 1171377005918 flavodoxin FldA; Validated; Region: PRK09267 1171377005919 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1171377005920 metal binding site 2 [ion binding]; metal-binding site 1171377005921 putative DNA binding helix; other site 1171377005922 metal binding site 1 [ion binding]; metal-binding site 1171377005923 dimer interface [polypeptide binding]; other site 1171377005924 structural Zn2+ binding site [ion binding]; other site 1171377005925 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1171377005926 mce related protein; Region: MCE; pfam02470 1171377005927 mce related protein; Region: MCE; pfam02470 1171377005928 mce related protein; Region: MCE; pfam02470 1171377005929 mce related protein; Region: MCE; pfam02470 1171377005930 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1171377005931 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1171377005932 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1171377005933 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1171377005934 Walker A/P-loop; other site 1171377005935 ATP binding site [chemical binding]; other site 1171377005936 Q-loop/lid; other site 1171377005937 ABC transporter signature motif; other site 1171377005938 Walker B; other site 1171377005939 D-loop; other site 1171377005940 H-loop/switch region; other site 1171377005941 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1171377005942 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 1171377005943 substrate binding pocket [chemical binding]; other site 1171377005944 membrane-bound complex binding site; other site 1171377005945 hinge residues; other site 1171377005946 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 1171377005947 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1171377005948 catalytic residue [active] 1171377005949 multidrug efflux protein; Reviewed; Region: PRK01766 1171377005950 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1171377005951 cation binding site [ion binding]; other site 1171377005952 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1171377005953 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1171377005954 active site 1171377005955 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1171377005956 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1171377005957 putative metal binding site [ion binding]; other site 1171377005958 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1171377005959 CAT RNA binding domain; Region: CAT_RBD; smart01061 1171377005960 PRD domain; Region: PRD; pfam00874 1171377005961 PRD domain; Region: PRD; pfam00874 1171377005962 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1171377005963 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1171377005964 active site turn [active] 1171377005965 phosphorylation site [posttranslational modification] 1171377005966 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1171377005967 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1171377005968 HPr interaction site; other site 1171377005969 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1171377005970 active site 1171377005971 phosphorylation site [posttranslational modification] 1171377005972 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1171377005973 beta-galactosidase; Region: BGL; TIGR03356 1171377005974 Alkali metal cation/H+ antiporter Nha1 C terminus; Region: Nha1_C; pfam08619 1171377005975 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1171377005976 UbiA prenyltransferase family; Region: UbiA; pfam01040 1171377005977 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1171377005978 homodimer interaction site [polypeptide binding]; other site 1171377005979 cofactor binding site; other site 1171377005980 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1171377005981 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1171377005982 amphipathic channel; other site 1171377005983 Asn-Pro-Ala signature motifs; other site 1171377005984 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 1171377005985 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1171377005986 threonine dehydratase; Reviewed; Region: PRK09224 1171377005987 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 1171377005988 tetramer interface [polypeptide binding]; other site 1171377005989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377005990 catalytic residue [active] 1171377005991 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1171377005992 putative Ile/Val binding site [chemical binding]; other site 1171377005993 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1171377005994 putative Ile/Val binding site [chemical binding]; other site 1171377005995 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1171377005996 GTP1/OBG; Region: GTP1_OBG; pfam01018 1171377005997 Obg GTPase; Region: Obg; cd01898 1171377005998 G1 box; other site 1171377005999 GTP/Mg2+ binding site [chemical binding]; other site 1171377006000 Switch I region; other site 1171377006001 G2 box; other site 1171377006002 G3 box; other site 1171377006003 Switch II region; other site 1171377006004 G4 box; other site 1171377006005 G5 box; other site 1171377006006 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1171377006007 EamA-like transporter family; Region: EamA; pfam00892 1171377006008 EamA-like transporter family; Region: EamA; pfam00892 1171377006009 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1171377006010 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1171377006011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377006012 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1171377006013 putative dimerization interface [polypeptide binding]; other site 1171377006014 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1171377006015 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1171377006016 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1171377006017 intersubunit interface [polypeptide binding]; other site 1171377006018 active site 1171377006019 catalytic residue [active] 1171377006020 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1171377006021 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1171377006022 Nucleoside recognition; Region: Gate; pfam07670 1171377006023 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1171377006024 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1171377006025 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 1171377006026 putative active site cavity [active] 1171377006027 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1171377006028 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1171377006029 nucleotide binding site [chemical binding]; other site 1171377006030 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1171377006031 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1171377006032 Na binding site [ion binding]; other site 1171377006033 Protein of unknown function (DUF997); Region: DUF997; cl01614 1171377006034 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 1171377006035 dimerization interface [polypeptide binding]; other site 1171377006036 DNA binding site [nucleotide binding] 1171377006037 corepressor binding sites; other site 1171377006038 hypothetical protein; Validated; Region: PRK05090 1171377006039 YGGT family; Region: YGGT; pfam02325 1171377006040 YGGT family; Region: YGGT; pfam02325 1171377006041 hypothetical protein; Provisional; Region: PRK11702 1171377006042 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 1171377006043 S-adenosylmethionine binding site [chemical binding]; other site 1171377006044 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1171377006045 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 1171377006046 dimer interface [polypeptide binding]; other site 1171377006047 active site 1171377006048 CoA binding pocket [chemical binding]; other site 1171377006049 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1171377006050 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1171377006051 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1171377006052 Cytochrome b562; Region: Cytochrom_B562; pfam07361 1171377006053 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1171377006054 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 1171377006055 dimer interface [polypeptide binding]; other site 1171377006056 active site 1171377006057 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1171377006058 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1171377006059 active site 1171377006060 Zn binding site [ion binding]; other site 1171377006061 ferrochelatase; Reviewed; Region: hemH; PRK00035 1171377006062 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 1171377006063 C-terminal domain interface [polypeptide binding]; other site 1171377006064 active site 1171377006065 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 1171377006066 active site 1171377006067 N-terminal domain interface [polypeptide binding]; other site 1171377006068 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 1171377006069 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1171377006070 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1171377006071 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1171377006072 active site 1171377006073 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; cl01298 1171377006074 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1171377006075 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1171377006076 Walker A/P-loop; other site 1171377006077 ATP binding site [chemical binding]; other site 1171377006078 Q-loop/lid; other site 1171377006079 ABC transporter signature motif; other site 1171377006080 Walker B; other site 1171377006081 D-loop; other site 1171377006082 H-loop/switch region; other site 1171377006083 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1171377006084 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1171377006085 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1171377006086 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1171377006087 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1171377006088 NADP binding site [chemical binding]; other site 1171377006089 active site 1171377006090 putative substrate binding site [chemical binding]; other site 1171377006091 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1171377006092 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1171377006093 substrate binding site; other site 1171377006094 tetramer interface; other site 1171377006095 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1171377006096 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1171377006097 NAD binding site [chemical binding]; other site 1171377006098 substrate binding site [chemical binding]; other site 1171377006099 homodimer interface [polypeptide binding]; other site 1171377006100 active site 1171377006101 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1171377006102 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1171377006103 Na2 binding site [ion binding]; other site 1171377006104 putative substrate binding site 1 [chemical binding]; other site 1171377006105 Na binding site 1 [ion binding]; other site 1171377006106 putative substrate binding site 2 [chemical binding]; other site 1171377006107 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 1171377006108 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1171377006109 DNA binding site [nucleotide binding] 1171377006110 domain linker motif; other site 1171377006111 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1171377006112 dimerization interface [polypeptide binding]; other site 1171377006113 ligand binding site [chemical binding]; other site 1171377006114 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1171377006115 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1171377006116 substrate binding [chemical binding]; other site 1171377006117 active site 1171377006118 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1171377006119 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1171377006120 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 1171377006121 putative substrate binding site [chemical binding]; other site 1171377006122 putative ATP binding site [chemical binding]; other site 1171377006123 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1171377006124 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 1171377006125 RNA binding surface [nucleotide binding]; other site 1171377006126 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1171377006127 active site 1171377006128 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1171377006129 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1171377006130 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1171377006131 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1171377006132 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1171377006133 trimer interface [polypeptide binding]; other site 1171377006134 eyelet of channel; other site 1171377006135 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1171377006136 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1171377006137 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1171377006138 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1171377006139 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 1171377006140 putative active site [active] 1171377006141 putative metal-binding site [ion binding]; other site 1171377006142 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1171377006143 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1171377006144 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 1171377006145 dimerization domain swap beta strand [polypeptide binding]; other site 1171377006146 regulatory protein interface [polypeptide binding]; other site 1171377006147 active site 1171377006148 regulatory phosphorylation site [posttranslational modification]; other site 1171377006149 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1171377006150 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1171377006151 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1171377006152 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1171377006153 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 1171377006154 HPr interaction site; other site 1171377006155 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1171377006156 active site 1171377006157 phosphorylation site [posttranslational modification] 1171377006158 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1171377006159 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1171377006160 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 1171377006161 FeS/SAM binding site; other site 1171377006162 TRAM domain; Region: TRAM; pfam01938 1171377006163 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1171377006164 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1171377006165 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1171377006166 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1171377006167 catalytic site [active] 1171377006168 subunit interface [polypeptide binding]; other site 1171377006169 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1171377006170 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1171377006171 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1171377006172 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1171377006173 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1171377006174 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1171377006175 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 1171377006176 IMP binding site; other site 1171377006177 dimer interface [polypeptide binding]; other site 1171377006178 interdomain contacts; other site 1171377006179 partial ornithine binding site; other site 1171377006180 membrane protein insertase; Provisional; Region: PRK01318 1171377006181 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1171377006182 hypothetical protein; Provisional; Region: PRK01752 1171377006183 SEC-C motif; Region: SEC-C; pfam02810 1171377006184 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 1171377006185 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1171377006186 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1171377006187 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 1171377006188 substrate binding pocket [chemical binding]; other site 1171377006189 membrane-bound complex binding site; other site 1171377006190 hinge residues; other site 1171377006191 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1171377006192 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 1171377006193 glutaminase active site [active] 1171377006194 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 1171377006195 dimer interface [polypeptide binding]; other site 1171377006196 active site 1171377006197 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 1171377006198 dimer interface [polypeptide binding]; other site 1171377006199 active site 1171377006200 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1171377006201 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1171377006202 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1171377006203 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1171377006204 dimer interface [polypeptide binding]; other site 1171377006205 putative radical transfer pathway; other site 1171377006206 diiron center [ion binding]; other site 1171377006207 tyrosyl radical; other site 1171377006208 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 1171377006209 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1171377006210 active site 1171377006211 dimer interface [polypeptide binding]; other site 1171377006212 catalytic residues [active] 1171377006213 effector binding site; other site 1171377006214 R2 peptide binding site; other site 1171377006215 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1171377006216 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1171377006217 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1171377006218 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377006219 dimer interface [polypeptide binding]; other site 1171377006220 conserved gate region; other site 1171377006221 putative PBP binding loops; other site 1171377006222 ABC-ATPase subunit interface; other site 1171377006223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377006224 dimer interface [polypeptide binding]; other site 1171377006225 conserved gate region; other site 1171377006226 putative PBP binding loops; other site 1171377006227 ABC-ATPase subunit interface; other site 1171377006228 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 1171377006229 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1171377006230 Walker A/P-loop; other site 1171377006231 ATP binding site [chemical binding]; other site 1171377006232 Q-loop/lid; other site 1171377006233 ABC transporter signature motif; other site 1171377006234 Walker B; other site 1171377006235 D-loop; other site 1171377006236 H-loop/switch region; other site 1171377006237 TOBE domain; Region: TOBE_2; pfam08402 1171377006238 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1171377006239 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1171377006240 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1171377006241 hypothetical protein; Provisional; Region: PRK02913 1171377006242 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 1171377006243 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1171377006244 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1171377006245 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1171377006246 active pocket/dimerization site; other site 1171377006247 active site 1171377006248 phosphorylation site [posttranslational modification] 1171377006249 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1171377006250 active site 1171377006251 phosphorylation site [posttranslational modification] 1171377006252 Predicted membrane protein [Function unknown]; Region: COG1584 1171377006253 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1171377006254 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1171377006255 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1171377006256 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 1171377006257 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1171377006258 Walker A/P-loop; other site 1171377006259 ATP binding site [chemical binding]; other site 1171377006260 Q-loop/lid; other site 1171377006261 ABC transporter signature motif; other site 1171377006262 Walker B; other site 1171377006263 D-loop; other site 1171377006264 H-loop/switch region; other site 1171377006265 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 1171377006266 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1171377006267 siderophore binding site; other site 1171377006268 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1171377006269 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 1171377006270 ABC-ATPase subunit interface; other site 1171377006271 dimer interface [polypeptide binding]; other site 1171377006272 putative PBP binding regions; other site 1171377006273 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 1171377006274 ABC-ATPase subunit interface; other site 1171377006275 dimer interface [polypeptide binding]; other site 1171377006276 putative PBP binding regions; other site 1171377006277 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 1171377006278 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 1171377006279 N-terminal plug; other site 1171377006280 ligand-binding site [chemical binding]; other site 1171377006281 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1171377006282 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1171377006283 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1171377006284 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1171377006285 Walker A/P-loop; other site 1171377006286 ATP binding site [chemical binding]; other site 1171377006287 Q-loop/lid; other site 1171377006288 ABC transporter signature motif; other site 1171377006289 Walker B; other site 1171377006290 D-loop; other site 1171377006291 H-loop/switch region; other site 1171377006292 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1171377006293 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1171377006294 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 1171377006295 P loop; other site 1171377006296 GTP binding site [chemical binding]; other site 1171377006297 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1171377006298 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 1171377006299 S-adenosylmethionine binding site [chemical binding]; other site 1171377006300 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1171377006301 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1171377006302 active site 1171377006303 trimer interface [polypeptide binding]; other site 1171377006304 allosteric site; other site 1171377006305 active site lid [active] 1171377006306 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1171377006307 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1171377006308 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 1171377006309 active site 1171377006310 dimer interface [polypeptide binding]; other site 1171377006311 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1171377006312 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1171377006313 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1171377006314 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1171377006315 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1171377006316 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 1171377006317 motif II; other site 1171377006318 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1171377006319 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1171377006320 Mg++ binding site [ion binding]; other site 1171377006321 putative catalytic motif [active] 1171377006322 substrate binding site [chemical binding]; other site 1171377006323 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 1171377006324 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 1171377006325 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1171377006326 homodimer interface [polypeptide binding]; other site 1171377006327 active site 1171377006328 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1171377006329 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1171377006330 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1171377006331 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1171377006332 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1171377006333 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1171377006334 Coenzyme A binding pocket [chemical binding]; other site 1171377006335 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1171377006336 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1171377006337 active site 1171377006338 substrate binding site [chemical binding]; other site 1171377006339 metal binding site [ion binding]; metal-binding site 1171377006340 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 1171377006341 active site 1171377006342 tetramer interface [polypeptide binding]; other site 1171377006343 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1171377006344 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1171377006345 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1171377006346 hypothetical protein; Reviewed; Region: PRK00024 1171377006347 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1171377006348 MPN+ (JAMM) motif; other site 1171377006349 Zinc-binding site [ion binding]; other site 1171377006350 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1171377006351 Flavoprotein; Region: Flavoprotein; pfam02441 1171377006352 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1171377006353 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1171377006354 trimer interface [polypeptide binding]; other site 1171377006355 active site 1171377006356 division inhibitor protein; Provisional; Region: slmA; PRK09480 1171377006357 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1171377006358 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 1171377006359 Predicted peptidase [General function prediction only]; Region: COG4099 1171377006360 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1171377006361 active site 1171377006362 homotetramer interface [polypeptide binding]; other site 1171377006363 homodimer interface [polypeptide binding]; other site 1171377006364 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1171377006365 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1171377006366 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 1171377006367 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1171377006368 salt bridge; other site 1171377006369 non-specific DNA binding site [nucleotide binding]; other site 1171377006370 sequence-specific DNA binding site [nucleotide binding]; other site 1171377006371 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1171377006372 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1171377006373 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1171377006374 RimM N-terminal domain; Region: RimM; pfam01782 1171377006375 PRC-barrel domain; Region: PRC; pfam05239 1171377006376 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1171377006377 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1171377006378 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1171377006379 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1171377006380 alphaNTD homodimer interface [polypeptide binding]; other site 1171377006381 alphaNTD - beta interaction site [polypeptide binding]; other site 1171377006382 alphaNTD - beta' interaction site [polypeptide binding]; other site 1171377006383 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1171377006384 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1171377006385 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1171377006386 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 1171377006387 RNA binding surface [nucleotide binding]; other site 1171377006388 30S ribosomal protein S11; Validated; Region: PRK05309 1171377006389 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1171377006390 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1171377006391 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1171377006392 SecY translocase; Region: SecY; pfam00344 1171377006393 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1171377006394 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 1171377006395 23S rRNA binding site [nucleotide binding]; other site 1171377006396 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1171377006397 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1171377006398 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1171377006399 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 1171377006400 23S rRNA interface [nucleotide binding]; other site 1171377006401 L21e interface [polypeptide binding]; other site 1171377006402 5S rRNA interface [nucleotide binding]; other site 1171377006403 L27 interface [polypeptide binding]; other site 1171377006404 L5 interface [polypeptide binding]; other site 1171377006405 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1171377006406 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1171377006407 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1171377006408 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1171377006409 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1171377006410 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1171377006411 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1171377006412 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1171377006413 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1171377006414 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1171377006415 RNA binding site [nucleotide binding]; other site 1171377006416 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1171377006417 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1171377006418 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1171377006419 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1171377006420 active site 1171377006421 HIGH motif; other site 1171377006422 KMSK motif region; other site 1171377006423 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1171377006424 tRNA binding surface [nucleotide binding]; other site 1171377006425 anticodon binding site; other site 1171377006426 hypothetical protein; Provisional; Region: PRK11700 1171377006427 active site 1171377006428 metal binding site [ion binding]; metal-binding site 1171377006429 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1171377006430 TIGR01666 family membrane protein; Region: YCCS 1171377006431 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1171377006432 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1171377006433 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1171377006434 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1171377006435 active site 1171377006436 nucleophile elbow; other site 1171377006437 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1171377006438 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1171377006439 active site 1171377006440 metal binding site [ion binding]; metal-binding site 1171377006441 Diadenosine tetraphosphatase and related serine/threonine protein phosphatases [Signal transduction mechanisms]; Region: ApaH; COG0639 1171377006442 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 1171377006443 non-specific DNA binding site [nucleotide binding]; other site 1171377006444 salt bridge; other site 1171377006445 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1171377006446 sequence-specific DNA binding site [nucleotide binding]; other site 1171377006447 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1171377006448 active site 1171377006449 nucleotide binding site [chemical binding]; other site 1171377006450 HIGH motif; other site 1171377006451 KMSKS motif; other site 1171377006452 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1171377006453 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1171377006454 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377006455 trimer interface [polypeptide binding]; other site 1171377006456 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377006457 trimer interface [polypeptide binding]; other site 1171377006458 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377006459 trimer interface [polypeptide binding]; other site 1171377006460 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1171377006461 Haemagglutinin; Region: HIM; pfam05662 1171377006462 YadA-like C-terminal region; Region: YadA; pfam03895 1171377006463 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1171377006464 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1171377006465 metal binding site [ion binding]; metal-binding site 1171377006466 dimer interface [polypeptide binding]; other site 1171377006467 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377006468 putative substrate translocation pore; other site 1171377006469 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1171377006470 dihydropteroate synthase; Region: DHPS; TIGR01496 1171377006471 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1171377006472 substrate binding pocket [chemical binding]; other site 1171377006473 dimer interface [polypeptide binding]; other site 1171377006474 inhibitor binding site; inhibition site 1171377006475 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1171377006476 ArsC family; Region: ArsC; pfam03960 1171377006477 putative catalytic residues [active] 1171377006478 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1171377006479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 1171377006480 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 1171377006481 triosephosphate isomerase; Provisional; Region: PRK14567 1171377006482 substrate binding site [chemical binding]; other site 1171377006483 dimer interface [polypeptide binding]; other site 1171377006484 catalytic triad [active] 1171377006485 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1171377006486 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1171377006487 Permutation of conserved domain; other site 1171377006488 active site 1171377006489 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1171377006490 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1171377006491 Predicted membrane protein [Function unknown]; Region: COG1238 1171377006492 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1171377006493 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1171377006494 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1171377006495 Peptidase family M23; Region: Peptidase_M23; pfam01551 1171377006496 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1171377006497 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1171377006498 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1171377006499 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1171377006500 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1171377006501 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 1171377006502 dimer interface [polypeptide binding]; other site 1171377006503 ADP-ribose binding site [chemical binding]; other site 1171377006504 active site 1171377006505 nudix motif; other site 1171377006506 metal binding site [ion binding]; metal-binding site 1171377006507 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1171377006508 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1171377006509 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1171377006510 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1171377006511 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1171377006512 putative active site [active] 1171377006513 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 1171377006514 dimer interface [polypeptide binding]; other site 1171377006515 allosteric magnesium binding site [ion binding]; other site 1171377006516 active site 1171377006517 aspartate-rich active site metal binding site; other site 1171377006518 Schiff base residues; other site 1171377006519 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1171377006520 substrate binding site [chemical binding]; other site 1171377006521 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1171377006522 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1171377006523 Cl binding site [ion binding]; other site 1171377006524 oligomer interface [polypeptide binding]; other site 1171377006525 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377006526 putative substrate translocation pore; other site 1171377006527 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1171377006528 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1171377006529 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 1171377006530 ATP binding site [chemical binding]; other site 1171377006531 Mg2+ binding site [ion binding]; other site 1171377006532 G-X-G motif; other site 1171377006533 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 1171377006534 ATP binding site [chemical binding]; other site 1171377006535 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1171377006536 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1171377006537 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1171377006538 active site 1171377006539 metal binding site [ion binding]; metal-binding site 1171377006540 hexamer interface [polypeptide binding]; other site 1171377006541 glutamine synthetase; Provisional; Region: glnA; PRK09469 1171377006542 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1171377006543 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1171377006544 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1171377006545 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1171377006546 substrate binding site [chemical binding]; other site 1171377006547 oxyanion hole (OAH) forming residues; other site 1171377006548 trimer interface [polypeptide binding]; other site 1171377006549 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1171377006550 FRG domain; Region: FRG; pfam08867 1171377006551 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 1171377006552 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1171377006553 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1171377006554 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1171377006555 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1171377006556 trimer interface [polypeptide binding]; other site 1171377006557 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1171377006558 trimer interface [polypeptide binding]; other site 1171377006559 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377006560 trimer interface [polypeptide binding]; other site 1171377006561 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1171377006562 trimer interface [polypeptide binding]; other site 1171377006563 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1171377006564 YadA-like C-terminal region; Region: YadA; pfam03895 1171377006565 transcription-repair coupling factor; Provisional; Region: PRK10689 1171377006566 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1171377006567 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 1171377006568 ATP binding site [chemical binding]; other site 1171377006569 putative Mg++ binding site [ion binding]; other site 1171377006570 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 1171377006571 nucleotide binding region [chemical binding]; other site 1171377006572 ATP-binding site [chemical binding]; other site 1171377006573 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1171377006574 recF protein; Region: recf; TIGR00611 1171377006575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377006576 Walker A/P-loop; other site 1171377006577 ATP binding site [chemical binding]; other site 1171377006578 Q-loop/lid; other site 1171377006579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1171377006580 ABC transporter signature motif; other site 1171377006581 Walker B; other site 1171377006582 D-loop; other site 1171377006583 H-loop/switch region; other site 1171377006584 DNA polymerase III subunit beta; Validated; Region: PRK05643 1171377006585 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 1171377006586 putative DNA binding surface [nucleotide binding]; other site 1171377006587 dimer interface [polypeptide binding]; other site 1171377006588 beta-clamp/clamp loader binding surface; other site 1171377006589 beta-clamp/translesion DNA polymerase binding surface; other site 1171377006590 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1171377006591 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 1171377006592 Walker A motif; other site 1171377006593 ATP binding site [chemical binding]; other site 1171377006594 Walker B motif; other site 1171377006595 arginine finger; other site 1171377006596 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 1171377006597 DnaA box-binding interface [nucleotide binding]; other site 1171377006598 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1171377006599 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 1171377006600 23S rRNA interface [nucleotide binding]; other site 1171377006601 putative translocon interaction site; other site 1171377006602 signal recognition particle (SRP54) interaction site; other site 1171377006603 L23 interface [polypeptide binding]; other site 1171377006604 trigger factor interaction site; other site 1171377006605 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 1171377006606 23S rRNA interface [nucleotide binding]; other site 1171377006607 5S rRNA interface [nucleotide binding]; other site 1171377006608 putative antibiotic binding site [chemical binding]; other site 1171377006609 L25 interface [polypeptide binding]; other site 1171377006610 L27 interface [polypeptide binding]; other site 1171377006611 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1171377006612 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 1171377006613 G-X-X-G motif; other site 1171377006614 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1171377006615 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 1171377006616 protein-rRNA interface [nucleotide binding]; other site 1171377006617 putative translocon binding site; other site 1171377006618 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1171377006619 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1171377006620 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1171377006621 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1171377006622 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1171377006623 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1171377006624 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1171377006625 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1171377006626 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1171377006627 Pathogenicity locus; Region: Cdd1; pfam11731 1171377006628 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1171377006629 generic binding surface II; other site 1171377006630 ssDNA binding site; other site 1171377006631 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 1171377006632 ATP binding site [chemical binding]; other site 1171377006633 putative Mg++ binding site [ion binding]; other site 1171377006634 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 1171377006635 nucleotide binding region [chemical binding]; other site 1171377006636 ATP-binding site [chemical binding]; other site 1171377006637 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1171377006638 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1171377006639 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 1171377006640 Moco binding site; other site 1171377006641 metal coordination site [ion binding]; other site 1171377006642 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1171377006643 Zn2+ binding site [ion binding]; other site 1171377006644 Mg2+ binding site [ion binding]; other site 1171377006645 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1171377006646 synthetase active site [active] 1171377006647 NTP binding site [chemical binding]; other site 1171377006648 metal binding site [ion binding]; metal-binding site 1171377006649 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 1171377006650 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1171377006651 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1171377006652 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1171377006653 putative active site [active] 1171377006654 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1171377006655 sec-independent translocase; Provisional; Region: PRK01770 1171377006656 twin arginine translocase protein A; Provisional; Region: tatA; PRK01833 1171377006657 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1171377006658 sequence-specific DNA binding site [nucleotide binding]; other site 1171377006659 salt bridge; other site 1171377006660 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1171377006661 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1171377006662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1171377006663 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1171377006664 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1171377006665 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 1171377006666 S-adenosylmethionine binding site [chemical binding]; other site 1171377006667 Flavodoxin domain; Region: Flavodoxin_5; cl17428 1171377006668 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1171377006669 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1171377006670 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1171377006671 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1171377006672 Walker A/P-loop; other site 1171377006673 ATP binding site [chemical binding]; other site 1171377006674 Q-loop/lid; other site 1171377006675 ABC transporter signature motif; other site 1171377006676 Walker B; other site 1171377006677 D-loop; other site 1171377006678 H-loop/switch region; other site 1171377006679 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1171377006680 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1171377006681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1171377006682 dimer interface [polypeptide binding]; other site 1171377006683 conserved gate region; other site 1171377006684 putative PBP binding loops; other site 1171377006685 ABC-ATPase subunit interface; other site 1171377006686 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1171377006687 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1171377006688 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1171377006689 acyl-activating enzyme (AAE) consensus motif; other site 1171377006690 putative AMP binding site [chemical binding]; other site 1171377006691 putative active site [active] 1171377006692 putative CoA binding site [chemical binding]; other site 1171377006693 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1171377006694 Transglycosylase; Region: Transgly; pfam00912 1171377006695 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1171377006696 pyridoxamine kinase; Validated; Region: PRK05756 1171377006697 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1171377006698 dimer interface [polypeptide binding]; other site 1171377006699 pyridoxal binding site [chemical binding]; other site 1171377006700 ATP binding site [chemical binding]; other site 1171377006701 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1171377006702 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1171377006703 FtsI repressor; Provisional; Region: PRK10883 1171377006704 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1171377006705 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1171377006706 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1171377006707 putative acyl-acceptor binding pocket; other site 1171377006708 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1171377006709 dimer interface [polypeptide binding]; other site 1171377006710 catalytic triad [active] 1171377006711 peroxidatic and resolving cysteines [active] 1171377006712 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 1171377006713 putative active site [active] 1171377006714 Ap4A binding site [chemical binding]; other site 1171377006715 nudix motif; other site 1171377006716 putative metal binding site [ion binding]; other site 1171377006717 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1171377006718 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1171377006719 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1171377006720 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 1171377006721 inhibitor-cofactor binding pocket; inhibition site 1171377006722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1171377006723 catalytic residue [active] 1171377006724 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1171377006725 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1171377006726 dimer interface [polypeptide binding]; other site 1171377006727 tetramer interface [polypeptide binding]; other site 1171377006728 PYR/PP interface [polypeptide binding]; other site 1171377006729 TPP binding site [chemical binding]; other site 1171377006730 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1171377006731 TPP-binding site; other site 1171377006732 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1171377006733 Putative serine esterase (DUF676); Region: DUF676; pfam05057 1171377006734 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1171377006735 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1171377006736 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1171377006737 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1171377006738 conserved cys residue [active] 1171377006739 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1171377006740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1171377006741 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1171377006742 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1171377006743 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1171377006744 Fic family protein [Function unknown]; Region: COG3177 1171377006745 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1171377006746 Fic/DOC family; Region: Fic; pfam02661 1171377006747 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1171377006748 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1171377006749 Divergent AAA domain; Region: AAA_4; pfam04326 1171377006750 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1171377006751 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1171377006752 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1171377006753 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1171377006754 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 1171377006755 ATP binding site [chemical binding]; other site 1171377006756 putative Mg++ binding site [ion binding]; other site 1171377006757 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1171377006758 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1171377006759 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1171377006760 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 1171377006761 N-terminal plug; other site 1171377006762 ligand-binding site [chemical binding]; other site 1171377006763 uridine phosphorylase; Provisional; Region: PRK11178 1171377006764 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1171377006765 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 1171377006766 active site 1171377006767 catalytic triad [active] 1171377006768 oxyanion hole [active] 1171377006769 Chorismate lyase; Region: Chor_lyase; cl01230 1171377006770 glutamate racemase; Provisional; Region: PRK00865 1171377006771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1171377006772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1171377006773 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 1171377006774 putative effector binding pocket; other site 1171377006775 dimerization interface [polypeptide binding]; other site 1171377006776 Pirin-related protein [General function prediction only]; Region: COG1741 1171377006777 Pirin; Region: Pirin; pfam02678 1171377006778 Predicted flavoprotein [General function prediction only]; Region: COG0431 1171377006779 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1171377006780 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1171377006781 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1171377006782 active site 1171377006783 Int/Topo IB signature motif; other site 1171377006784 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1171377006785 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 1171377006786 catalytic residues [active] 1171377006787 central insert; other site 1171377006788 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1171377006789 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1171377006790 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1171377006791 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 1171377006792 binding surface 1171377006793 TPR motif; other site 1171377006794 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 1171377006795 ligand binding site [chemical binding]; other site 1171377006796 flexible hinge region; other site 1171377006797 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 1171377006798 putative switch regulator; other site 1171377006799 non-specific DNA interactions [nucleotide binding]; other site 1171377006800 DNA binding site [nucleotide binding] 1171377006801 sequence specific DNA binding site [nucleotide binding]; other site 1171377006802 putative cAMP binding site [chemical binding]; other site 1171377006803 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 1171377006804 active site 1171377006805 catalytic residues [active] 1171377006806 metal binding site [ion binding]; metal-binding site 1171377006807 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1171377006808 DNA protecting protein DprA; Region: dprA; TIGR00732 1171377006809 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1171377006810 Class II fumarases; Region: Fumarase_classII; cd01362 1171377006811 active site 1171377006812 tetramer interface [polypeptide binding]; other site 1171377006813 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1171377006814 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1171377006815 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1171377006816 selenocysteine synthase; Provisional; Region: PRK04311 1171377006817 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1171377006818 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1171377006819 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1171377006820 catalytic residue [active] 1171377006821 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1171377006822 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1171377006823 DNA binding site [nucleotide binding] 1171377006824 domain linker motif; other site 1171377006825 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 1171377006826 putative ligand binding site [chemical binding]; other site 1171377006827 putative dimerization interface [polypeptide binding]; other site 1171377006828 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1171377006829 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1171377006830 putative C-terminal domain interface [polypeptide binding]; other site 1171377006831 putative GSH binding site (G-site) [chemical binding]; other site 1171377006832 putative dimer interface [polypeptide binding]; other site 1171377006833 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1171377006834 dimer interface [polypeptide binding]; other site 1171377006835 N-terminal domain interface [polypeptide binding]; other site 1171377006836 substrate binding pocket (H-site) [chemical binding]; other site 1171377006837 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1171377006838 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1171377006839 ketol-acid reductoisomerase; Validated; Region: PRK05225 1171377006840 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1171377006841 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1171377006842 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1171377006843 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1171377006844 dimer interface [polypeptide binding]; other site 1171377006845 substrate binding site [chemical binding]; other site 1171377006846 metal binding sites [ion binding]; metal-binding site 1171377006847 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1171377006848 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1171377006849 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 1171377006850 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 1171377006851 active site 1171377006852 phosphorylation site [posttranslational modification] 1171377006853 intermolecular recognition site; other site 1171377006854 dimerization interface [polypeptide binding]; other site 1171377006855 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 1171377006856 DNA binding site [nucleotide binding] 1171377006857 sensor protein QseC; Provisional; Region: PRK10337 1171377006858 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 1171377006859 dimer interface [polypeptide binding]; other site 1171377006860 phosphorylation site [posttranslational modification] 1171377006861 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 1171377006862 ATP binding site [chemical binding]; other site 1171377006863 Mg2+ binding site [ion binding]; other site 1171377006864 G-X-G motif; other site 1171377006865 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1171377006866 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 1171377006867 cofactor binding site; other site 1171377006868 DNA binding site [nucleotide binding] 1171377006869 substrate interaction site [chemical binding]; other site 1171377006870 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 1171377006871 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 1171377006872 Mg2+ binding site [ion binding]; other site 1171377006873 G-X-G motif; other site 1171377006874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1171377006875 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 1171377006876 Mg2+ binding site [ion binding]; other site 1171377006877 G-X-G motif; other site 1171377006878 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 1171377006879 active site 1171377006880 phosphorylation site [posttranslational modification] 1171377006881 intermolecular recognition site; other site 1171377006882 AzlC protein; Region: AzlC; pfam03591 1171377006883 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1171377006884 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1171377006885 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1171377006886 Predicted exporter [General function prediction only]; Region: COG4258 1171377006887 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1171377006888 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1171377006889 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 1171377006890 active site 1171377006891 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1171377006892 putative acyl-acceptor binding pocket; other site 1171377006893 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1171377006894 Putative Catalytic site; other site 1171377006895 DXD motif; other site 1171377006896 AMP-binding enzyme; Region: AMP-binding; pfam00501 1171377006897 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1171377006898 AMP binding site [chemical binding]; other site 1171377006899 active site 1171377006900 acyl-activating enzyme (AAE) consensus motif; other site 1171377006901 CoA binding site [chemical binding]; other site 1171377006902 Predicted membrane protein [Function unknown]; Region: COG4648 1171377006903 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1171377006904 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1171377006905 acyl-activating enzyme (AAE) consensus motif; other site 1171377006906 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1171377006907 CoA binding site [chemical binding]; other site 1171377006908 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1171377006909 active site 2 [active] 1171377006910 active site 1 [active] 1171377006911 acyl carrier protein; Provisional; Region: PRK05350 1171377006912 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1171377006913 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1171377006914 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1171377006915 putative acyl-acceptor binding pocket; other site 1171377006916 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1171377006917 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 1171377006918 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1171377006919 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 1171377006920 dimer interface [polypeptide binding]; other site 1171377006921 active site 1171377006922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1171377006923 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1171377006924 NAD(P) binding site [chemical binding]; other site 1171377006925 active site 1171377006926 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 1171377006927 putative active site 1 [active] 1171377006928 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1171377006929 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 1171377006930 dimer interface [polypeptide binding]; other site 1171377006931 active site 1171377006932 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1171377006933 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 1171377006934 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1171377006935 Rpb1 - Rpb2 interaction site [polypeptide binding]; other site 1171377006936 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1171377006937 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1171377006938 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1171377006939 putative substrate translocation pore; other site 1171377006940 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 1171377006941 ATP binding site [chemical binding]; other site 1171377006942 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1171377006943 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1171377006944 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1171377006945 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1171377006946 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1171377006947 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1171377006948 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1171377006949 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1171377006950 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1171377006951 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1171377006952 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1171377006953 DNA binding site [nucleotide binding] 1171377006954 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1171377006955 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1171377006956 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 1171377006957 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1171377006958 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 1171377006959 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1171377006960 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 1171377006961 RPB3 interaction site [polypeptide binding]; other site 1171377006962 RPB1 interaction site [polypeptide binding]; other site 1171377006963 RPB11 interaction site [polypeptide binding]; other site 1171377006964 RPB10 interaction site [polypeptide binding]; other site 1171377006965 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 1171377006966 core dimer interface [polypeptide binding]; other site 1171377006967 peripheral dimer interface [polypeptide binding]; other site 1171377006968 L10 interface [polypeptide binding]; other site 1171377006969 L11 interface [polypeptide binding]; other site 1171377006970 putative EF-Tu interaction site [polypeptide binding]; other site 1171377006971 putative EF-G interaction site [polypeptide binding]; other site 1171377006972 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 1171377006973 23S rRNA interface [nucleotide binding]; other site 1171377006974 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1171377006975 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 1171377006976 mRNA/rRNA interface [nucleotide binding]; other site 1171377006977 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1171377006978 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 1171377006979 23S rRNA interface [nucleotide binding]; other site 1171377006980 L7/L12 interface [polypeptide binding]; other site 1171377006981 putative thiostrepton binding site; other site 1171377006982 L25 interface [polypeptide binding]; other site 1171377006983 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1171377006984 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1171377006985 putative homodimer interface [polypeptide binding]; other site 1171377006986 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1171377006987 heterodimer interface [polypeptide binding]; other site 1171377006988 homodimer interface [polypeptide binding]; other site 1171377006989 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1171377006990 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1171377006991 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1171377006992 active site 1171377006993 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1171377006994 substrate binding site [chemical binding]; other site 1171377006995 catalytic residues [active] 1171377006996 dimer interface [polypeptide binding]; other site 1171377006997 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1171377006998 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1171377006999 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1171377007000 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 1171377007001 FeS/SAM binding site; other site 1171377007002 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1171377007003 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1171377007004 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1171377007005 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1171377007006 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 1171377007007 Walker A motif; other site 1171377007008 ATP binding site [chemical binding]; other site 1171377007009 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1171377007010 Walker B motif; other site 1171377007011 arginine finger; other site 1171377007012 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1171377007013 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 1171377007014 active site 1171377007015 HslU subunit interaction site [polypeptide binding]; other site 1171377007016 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1171377007017 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1171377007018 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_1; cd08352 1171377007019 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1171377007020 putative metal binding site [ion binding]; other site 1171377007021 adenine DNA glycosylase; Provisional; Region: PRK10880 1171377007022 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1171377007023 minor groove reading motif; other site 1171377007024 helix-hairpin-helix signature motif; other site 1171377007025 substrate binding pocket [chemical binding]; other site 1171377007026 active site 1171377007027 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1171377007028 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1171377007029 DNA binding and oxoG recognition site [nucleotide binding] 1171377007030 oxidative damage protection protein; Provisional; Region: PRK05408 1171377007031 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1171377007032 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1171377007033 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 1171377007034 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1171377007035 catalytic residue [active] 1171377007036 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1171377007037 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1171377007038 Bacterial transcriptional regulator; Region: IclR; pfam01614 1171377007039 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 1171377007040 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1171377007041 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1171377007042 DctM-like transporters; Region: DctM; pfam06808 1171377007043 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1171377007044 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1171377007045 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1171377007046 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1171377007047 putative N- and C-terminal domain interface [polypeptide binding]; other site 1171377007048 putative active site [active] 1171377007049 MgATP binding site [chemical binding]; other site 1171377007050 catalytic site [active] 1171377007051 metal binding site [ion binding]; metal-binding site 1171377007052 putative xylulose binding site [chemical binding]; other site 1171377007053 KduI/IolB family; Region: KduI; cl01508 1171377007054 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1171377007055 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1171377007056 tetrameric interface [polypeptide binding]; other site 1171377007057 NAD binding site [chemical binding]; other site 1171377007058 catalytic residues [active] 1171377007059 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1171377007060 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1171377007061 ligand binding site [chemical binding]; other site 1171377007062 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1171377007063 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1171377007064 Walker A/P-loop; other site 1171377007065 ATP binding site [chemical binding]; other site 1171377007066 Q-loop/lid; other site 1171377007067 ABC transporter signature motif; other site 1171377007068 Walker B; other site 1171377007069 D-loop; other site 1171377007070 H-loop/switch region; other site 1171377007071 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1171377007072 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1171377007073 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 1171377007074 TM-ABC transporter signature motif; other site 1171377007075 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1171377007076 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1171377007077 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1171377007078 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1171377007079 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1171377007080 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1171377007081 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1171377007082 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 1171377007083 Metal-binding active site; metal-binding site 1171377007084 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1171377007085 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1171377007086 PYR/PP interface [polypeptide binding]; other site 1171377007087 dimer interface [polypeptide binding]; other site 1171377007088 TPP binding site [chemical binding]; other site 1171377007089 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1171377007090 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1171377007091 TPP-binding site; other site 1171377007092 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1171377007093 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 1171377007094 substrate binding site [chemical binding]; other site 1171377007095 ATP binding site [chemical binding]; other site 1171377007096 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1171377007097 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1171377007098 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1171377007099 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1171377007100 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 1171377007101 putative active site [active] 1171377007102 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1171377007103 active site turn [active] 1171377007104 phosphorylation site [posttranslational modification] 1171377007105 signal recognition particle protein; Provisional; Region: PRK10867 1171377007106 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1171377007107 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 1171377007108 P loop; other site 1171377007109 GTP binding site [chemical binding]; other site 1171377007110 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1171377007111 lipoyl synthase; Provisional; Region: PRK05481 1171377007112 lipoate-protein ligase B; Provisional; Region: PRK14342 1171377007113 hypothetical protein; Provisional; Region: PRK04998 1171377007114 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1171377007115 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1171377007116 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1171377007117 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1171377007118 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1171377007119 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1171377007120 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1171377007121 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1171377007122 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1171377007123 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 1171377007124 Oligomerisation domain; Region: Oligomerisation; cl00519