-- dump date 20140619_064629 -- class Genbank::misc_feature -- table misc_feature_note -- id note 526222000001 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 526222000002 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 526222000003 P-loop; other site 526222000004 Magnesium ion binding site [ion binding]; other site 526222000005 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 526222000006 Magnesium ion binding site [ion binding]; other site 526222000007 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 526222000008 ParB-like nuclease domain; Region: ParB; smart00470 526222000009 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 526222000010 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222000011 putative ribose interaction site [chemical binding]; other site 526222000012 putative ADP binding site [chemical binding]; other site 526222000013 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222000014 GAF domain; Region: GAF; pfam01590 526222000015 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 526222000016 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 526222000017 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 526222000018 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 526222000019 anti sigma factor interaction site; other site 526222000020 regulatory phosphorylation site [posttranslational modification]; other site 526222000021 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 526222000022 Permease; Region: Permease; pfam02405 526222000023 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 526222000024 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 526222000025 Walker A/P-loop; other site 526222000026 ATP binding site [chemical binding]; other site 526222000027 Q-loop/lid; other site 526222000028 ABC transporter signature motif; other site 526222000029 Walker B; other site 526222000030 D-loop; other site 526222000031 H-loop/switch region; other site 526222000032 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 526222000033 mce related protein; Region: MCE; pfam02470 526222000034 Protein of unknown function (DUF330); Region: DUF330; cl01135 526222000035 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 526222000036 FOG: WD40 repeat [General function prediction only]; Region: COG2319 526222000037 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 526222000038 6-phosphofructokinase; Region: PLN02884 526222000039 active site 526222000040 ADP/pyrophosphate binding site [chemical binding]; other site 526222000041 dimerization interface [polypeptide binding]; other site 526222000042 allosteric effector site; other site 526222000043 fructose-1,6-bisphosphate binding site; other site 526222000044 poly(A) polymerase; Region: pcnB; TIGR01942 526222000045 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 526222000046 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222000047 Zn2+ binding site [ion binding]; other site 526222000048 Mg2+ binding site [ion binding]; other site 526222000049 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 526222000050 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 526222000051 dihydroorotase; Validated; Region: pyrC; PRK09357 526222000052 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 526222000053 active site 526222000054 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 526222000055 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 526222000056 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 526222000057 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 526222000058 imidazolonepropionase; Region: hutI; TIGR01224 526222000059 active site 526222000060 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 526222000061 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 526222000062 tandem repeat interface [polypeptide binding]; other site 526222000063 oligomer interface [polypeptide binding]; other site 526222000064 active site residues [active] 526222000065 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 526222000066 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 526222000067 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 526222000068 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 526222000069 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_1; cd09156 526222000070 putative active site [active] 526222000071 catalytic site [active] 526222000072 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_2; cd09162 526222000073 putative active site [active] 526222000074 catalytic site [active] 526222000075 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222000076 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 526222000077 ligand binding site [chemical binding]; other site 526222000078 flexible hinge region; other site 526222000079 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 526222000080 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222000081 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222000082 ligand binding site [chemical binding]; other site 526222000083 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 526222000084 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 526222000085 Ligand binding site; other site 526222000086 Putative Catalytic site; other site 526222000087 DXD motif; other site 526222000088 Escherichia coli YdjC-like family of proteins; Region: YdjC; cd10808 526222000089 putative active site [active] 526222000090 YdjC motif; other site 526222000091 Mg binding site [ion binding]; other site 526222000092 putative homodimer interface [polypeptide binding]; other site 526222000093 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 526222000094 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 526222000095 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 526222000096 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 526222000097 Peptidase M16C associated; Region: M16C_assoc; pfam08367 526222000098 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 526222000099 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 526222000100 dimer interface [polypeptide binding]; other site 526222000101 decamer (pentamer of dimers) interface [polypeptide binding]; other site 526222000102 catalytic triad [active] 526222000103 peroxidatic and resolving cysteines [active] 526222000104 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 526222000105 S-adenosylmethionine binding site [chemical binding]; other site 526222000106 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 526222000107 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 526222000108 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222000109 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222000110 dimer interface [polypeptide binding]; other site 526222000111 putative CheW interface [polypeptide binding]; other site 526222000112 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 526222000113 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 526222000114 MOFRL family; Region: MOFRL; pfam05161 526222000115 Transcriptional regulators [Transcription]; Region: FadR; COG2186 526222000116 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222000117 DNA-binding site [nucleotide binding]; DNA binding site 526222000118 FCD domain; Region: FCD; pfam07729 526222000119 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 526222000120 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 526222000121 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 526222000122 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 526222000123 dimerization interface [polypeptide binding]; other site 526222000124 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222000125 dimer interface [polypeptide binding]; other site 526222000126 putative CheW interface [polypeptide binding]; other site 526222000127 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222000128 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 526222000129 S-adenosylmethionine binding site [chemical binding]; other site 526222000130 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 526222000131 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222000132 acyl-activating enzyme (AAE) consensus motif; other site 526222000133 AMP binding site [chemical binding]; other site 526222000134 active site 526222000135 CoA binding site [chemical binding]; other site 526222000136 Protein of unknown function, DUF399; Region: DUF399; pfam04187 526222000137 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 526222000138 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 526222000139 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 526222000140 DNA binding site [nucleotide binding] 526222000141 catalytic residue [active] 526222000142 H2TH interface [polypeptide binding]; other site 526222000143 putative catalytic residues [active] 526222000144 turnover-facilitating residue; other site 526222000145 intercalation triad [nucleotide binding]; other site 526222000146 8OG recognition residue [nucleotide binding]; other site 526222000147 putative reading head residues; other site 526222000148 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 526222000149 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 526222000150 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 526222000151 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 526222000152 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 526222000153 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 526222000154 S-adenosylmethionine binding site [chemical binding]; other site 526222000155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222000156 AAA domain; Region: AAA_23; pfam13476 526222000157 Walker A/P-loop; other site 526222000158 ATP binding site [chemical binding]; other site 526222000159 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 526222000160 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 526222000161 active site 526222000162 metal binding site [ion binding]; metal-binding site 526222000163 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 526222000164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222000165 ABC transporter signature motif; other site 526222000166 Walker B; other site 526222000167 D-loop; other site 526222000168 H-loop/switch region; other site 526222000169 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 526222000170 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 526222000171 Helix-turn-helix domain; Region: HTH_17; pfam12728 526222000172 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 526222000173 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 526222000174 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 526222000175 substrate binding site [chemical binding]; other site 526222000176 Hemerythrin; Region: Hemerythrin; cd12107 526222000177 Fe binding site [ion binding]; other site 526222000178 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 526222000179 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 526222000180 putative dimer interface [polypeptide binding]; other site 526222000181 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 526222000182 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 526222000183 putative dimer interface [polypeptide binding]; other site 526222000184 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 526222000185 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 526222000186 Trm112p-like protein; Region: Trm112p; cl01066 526222000187 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 526222000188 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 526222000189 active site 526222000190 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 526222000191 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 526222000192 Peptidase family U32; Region: Peptidase_U32; pfam01136 526222000193 FOG: CBS domain [General function prediction only]; Region: COG0517 526222000194 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 526222000195 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 526222000196 hypothetical protein; Provisional; Region: PRK02250 526222000197 SEC-C motif; Region: SEC-C; pfam02810 526222000198 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 526222000199 hypothetical protein; Provisional; Region: PRK09256 526222000200 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 526222000201 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222000202 ligand binding site [chemical binding]; other site 526222000203 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222000204 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222000205 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222000206 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222000207 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222000208 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222000209 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 526222000210 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 526222000211 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 526222000212 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 526222000213 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 526222000214 Walker A/P-loop; other site 526222000215 ATP binding site [chemical binding]; other site 526222000216 Q-loop/lid; other site 526222000217 ABC transporter signature motif; other site 526222000218 Walker B; other site 526222000219 D-loop; other site 526222000220 H-loop/switch region; other site 526222000221 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 526222000222 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 526222000223 ABC-ATPase subunit interface; other site 526222000224 dimer interface [polypeptide binding]; other site 526222000225 putative PBP binding regions; other site 526222000226 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 526222000227 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 526222000228 putative metal binding site [ion binding]; other site 526222000229 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 526222000230 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 526222000231 intracellular protease, PfpI family; Region: PfpI; TIGR01382 526222000232 conserved cys residue [active] 526222000233 FG-GAP repeat; Region: FG-GAP_2; pfam14312 526222000234 FG-GAP repeat; Region: FG-GAP_2; pfam14312 526222000235 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 526222000236 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 526222000237 PAS fold; Region: PAS; pfam00989 526222000238 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 526222000239 putative active site [active] 526222000240 heme pocket [chemical binding]; other site 526222000241 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 526222000242 Ferritin-like domain; Region: Ferritin; pfam00210 526222000243 ferroxidase diiron center [ion binding]; other site 526222000244 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 526222000245 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 526222000246 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 526222000247 HEAT-like repeat; Region: HEAT_EZ; pfam13513 526222000248 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 526222000249 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 526222000250 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 526222000251 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 526222000252 Rubredoxin; Region: Rubredoxin; pfam00301 526222000253 iron binding site [ion binding]; other site 526222000254 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 526222000255 Rubredoxin; Region: Rubredoxin; pfam00301 526222000256 iron binding site [ion binding]; other site 526222000257 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 526222000258 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 526222000259 non-heme iron binding site [ion binding]; other site 526222000260 dimer interface [polypeptide binding]; other site 526222000261 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 526222000262 non-heme iron binding site [ion binding]; other site 526222000263 dimer interface [polypeptide binding]; other site 526222000264 Rubrerythrin [Energy production and conversion]; Region: COG1592 526222000265 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 526222000266 binuclear metal center [ion binding]; other site 526222000267 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 526222000268 iron binding site [ion binding]; other site 526222000269 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 526222000270 metal binding site 2 [ion binding]; metal-binding site 526222000271 putative DNA binding helix; other site 526222000272 metal binding site 1 [ion binding]; metal-binding site 526222000273 dimer interface [polypeptide binding]; other site 526222000274 structural Zn2+ binding site [ion binding]; other site 526222000275 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 526222000276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222000277 active site 526222000278 phosphorylation site [posttranslational modification] 526222000279 intermolecular recognition site; other site 526222000280 dimerization interface [polypeptide binding]; other site 526222000281 LytTr DNA-binding domain; Region: LytTR; smart00850 526222000282 acetyl-CoA synthetase; Provisional; Region: PRK00174 526222000283 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222000284 acyl-activating enzyme (AAE) consensus motif; other site 526222000285 AMP binding site [chemical binding]; other site 526222000286 active site 526222000287 CoA binding site [chemical binding]; other site 526222000288 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 526222000289 Phosphate transporter family; Region: PHO4; pfam01384 526222000290 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 526222000291 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 526222000292 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 526222000293 dimerization interface [polypeptide binding]; other site 526222000294 PAS domain; Region: PAS; smart00091 526222000295 putative active site [active] 526222000296 heme pocket [chemical binding]; other site 526222000297 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 526222000298 dimer interface [polypeptide binding]; other site 526222000299 phosphorylation site [posttranslational modification] 526222000300 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 526222000301 ATP binding site [chemical binding]; other site 526222000302 Mg2+ binding site [ion binding]; other site 526222000303 G-X-G motif; other site 526222000304 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 526222000305 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 526222000306 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 526222000307 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 526222000308 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 526222000309 FeS/SAM binding site; other site 526222000310 FeoA domain; Region: FeoA; pfam04023 526222000311 FeoA domain; Region: FeoA; pfam04023 526222000312 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 526222000313 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 526222000314 Soluble P-type ATPase [General function prediction only]; Region: COG4087 526222000315 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 526222000316 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 526222000317 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 526222000318 Soluble P-type ATPase [General function prediction only]; Region: COG4087 526222000319 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 526222000320 metal binding site 2 [ion binding]; metal-binding site 526222000321 putative DNA binding helix; other site 526222000322 metal binding site 1 [ion binding]; metal-binding site 526222000323 dimer interface [polypeptide binding]; other site 526222000324 structural Zn2+ binding site [ion binding]; other site 526222000325 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 526222000326 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222000327 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222000328 metal binding site [ion binding]; metal-binding site 526222000329 active site 526222000330 I-site; other site 526222000331 FeoA domain; Region: FeoA; pfam04023 526222000332 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 526222000333 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 526222000334 G1 box; other site 526222000335 GTP/Mg2+ binding site [chemical binding]; other site 526222000336 Switch I region; other site 526222000337 G2 box; other site 526222000338 G3 box; other site 526222000339 Switch II region; other site 526222000340 G4 box; other site 526222000341 G5 box; other site 526222000342 Nucleoside recognition; Region: Gate; pfam07670 526222000343 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 526222000344 Nucleoside recognition; Region: Gate; pfam07670 526222000345 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222000346 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 526222000347 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 526222000348 phosphoserine phosphatase SerB; Region: serB; TIGR00338 526222000349 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 526222000350 motif II; other site 526222000351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222000352 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 526222000353 ATP binding site [chemical binding]; other site 526222000354 Mg2+ binding site [ion binding]; other site 526222000355 G-X-G motif; other site 526222000356 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 526222000357 Predicted transcriptional regulator [Transcription]; Region: COG2932 526222000358 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; cd06462 526222000359 Catalytic site [active] 526222000360 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 526222000361 oligomerization interface [polypeptide binding]; other site 526222000362 active site 526222000363 metal binding site [ion binding]; metal-binding site 526222000364 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 526222000365 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 526222000366 catalytic site [active] 526222000367 putative active site [active] 526222000368 putative substrate binding site [chemical binding]; other site 526222000369 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 526222000370 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 526222000371 G1 box; other site 526222000372 putative GEF interaction site [polypeptide binding]; other site 526222000373 GTP/Mg2+ binding site [chemical binding]; other site 526222000374 Switch I region; other site 526222000375 G2 box; other site 526222000376 G3 box; other site 526222000377 Switch II region; other site 526222000378 G4 box; other site 526222000379 G5 box; other site 526222000380 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 526222000381 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 526222000382 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222000383 active site 526222000384 ATP binding site [chemical binding]; other site 526222000385 substrate binding site [chemical binding]; other site 526222000386 activation loop (A-loop); other site 526222000387 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222000388 AAA ATPase domain; Region: AAA_16; pfam13191 526222000389 Predicted ATPase [General function prediction only]; Region: COG3899 526222000390 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222000391 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 526222000392 PAS domain S-box; Region: sensory_box; TIGR00229 526222000393 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 526222000394 putative active site [active] 526222000395 heme pocket [chemical binding]; other site 526222000396 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 526222000397 dimer interface [polypeptide binding]; other site 526222000398 phosphorylation site [posttranslational modification] 526222000399 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 526222000400 ATP binding site [chemical binding]; other site 526222000401 Mg2+ binding site [ion binding]; other site 526222000402 G-X-G motif; other site 526222000403 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222000404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222000405 active site 526222000406 phosphorylation site [posttranslational modification] 526222000407 intermolecular recognition site; other site 526222000408 dimerization interface [polypeptide binding]; other site 526222000409 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 526222000410 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 526222000411 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 526222000412 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222000413 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222000414 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 526222000415 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222000416 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222000417 butyrate kinase; Provisional; Region: PRK03011 526222000418 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 526222000419 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 526222000420 trimerization site [polypeptide binding]; other site 526222000421 active site 526222000422 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 526222000423 NifU-like domain; Region: NifU; cl00484 526222000424 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 526222000425 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 526222000426 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222000427 catalytic residue [active] 526222000428 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 526222000429 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 526222000430 dimer interface [polypeptide binding]; other site 526222000431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222000432 catalytic residue [active] 526222000433 serine O-acetyltransferase; Region: cysE; TIGR01172 526222000434 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 526222000435 trimer interface [polypeptide binding]; other site 526222000436 active site 526222000437 substrate binding site [chemical binding]; other site 526222000438 CoA binding site [chemical binding]; other site 526222000439 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 526222000440 Predicted transcriptional regulator [Transcription]; Region: COG3905 526222000441 Caspase domain; Region: Peptidase_C14; pfam00656 526222000442 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 526222000443 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 526222000444 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 526222000445 dimer interface [polypeptide binding]; other site 526222000446 motif 1; other site 526222000447 active site 526222000448 motif 2; other site 526222000449 motif 3; other site 526222000450 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 526222000451 anticodon binding site; other site 526222000452 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 526222000453 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 526222000454 dimer interface [polypeptide binding]; other site 526222000455 anticodon binding site; other site 526222000456 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 526222000457 homodimer interface [polypeptide binding]; other site 526222000458 motif 1; other site 526222000459 active site 526222000460 motif 2; other site 526222000461 GAD domain; Region: GAD; pfam02938 526222000462 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 526222000463 motif 3; other site 526222000464 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 526222000465 active site 526222000466 catalytic residues [active] 526222000467 metal binding site [ion binding]; metal-binding site 526222000468 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 526222000469 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 526222000470 putative active site [active] 526222000471 substrate binding site [chemical binding]; other site 526222000472 putative cosubstrate binding site; other site 526222000473 catalytic site [active] 526222000474 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 526222000475 substrate binding site [chemical binding]; other site 526222000476 Protein of unknown function DUF116; Region: DUF116; pfam01976 526222000477 16S rRNA methyltransferase B; Provisional; Region: PRK14902 526222000478 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 526222000479 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 526222000480 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222000481 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 526222000482 binding surface 526222000483 TPR motif; other site 526222000484 TPR repeat; Region: TPR_11; pfam13414 526222000485 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 526222000486 non-specific DNA binding site [nucleotide binding]; other site 526222000487 salt bridge; other site 526222000488 sequence-specific DNA binding site [nucleotide binding]; other site 526222000489 Cupin domain; Region: Cupin_2; pfam07883 526222000490 AMP-binding domain protein; Validated; Region: PRK08315 526222000491 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222000492 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 526222000493 acyl-activating enzyme (AAE) consensus motif; other site 526222000494 putative AMP binding site [chemical binding]; other site 526222000495 putative active site [active] 526222000496 putative CoA binding site [chemical binding]; other site 526222000497 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 526222000498 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 526222000499 non-specific DNA binding site [nucleotide binding]; other site 526222000500 salt bridge; other site 526222000501 sequence-specific DNA binding site [nucleotide binding]; other site 526222000502 Cupin domain; Region: Cupin_2; pfam07883 526222000503 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222000504 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 526222000505 acyl-activating enzyme (AAE) consensus motif; other site 526222000506 AMP binding site [chemical binding]; other site 526222000507 active site 526222000508 CoA binding site [chemical binding]; other site 526222000509 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 526222000510 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222000511 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 526222000512 DNA binding residues [nucleotide binding] 526222000513 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 526222000514 S-adenosylmethionine binding site [chemical binding]; other site 526222000515 Predicted membrane protein [Function unknown]; Region: COG3304 526222000516 Domain of unknown function (DUF307); Region: DUF307; pfam03733 526222000517 Fic family protein [Function unknown]; Region: COG3177 526222000518 Fic/DOC family; Region: Fic; pfam02661 526222000519 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 526222000520 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 526222000521 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 526222000522 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222000523 FeS/SAM binding site; other site 526222000524 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 526222000525 putative DNA binding site [nucleotide binding]; other site 526222000526 putative Zn2+ binding site [ion binding]; other site 526222000527 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 526222000528 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 526222000529 homodimer interface [polypeptide binding]; other site 526222000530 oligonucleotide binding site [chemical binding]; other site 526222000531 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 526222000532 Ligand Binding Site [chemical binding]; other site 526222000533 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 526222000534 Ligand Binding Site [chemical binding]; other site 526222000535 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 526222000536 Ligand Binding Site [chemical binding]; other site 526222000537 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 526222000538 HemN C-terminal domain; Region: HemN_C; pfam06969 526222000539 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 526222000540 Caspase domain; Region: Peptidase_C14; pfam00656 526222000541 Uncharacterized conserved protein [Function unknown]; Region: COG1262 526222000542 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 526222000543 Uncharacterized conserved protein [Function unknown]; Region: COG1262 526222000544 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 526222000545 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 526222000546 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222000547 UDP-galactopyranose mutase; Region: GLF; pfam03275 526222000548 HflC protein; Region: hflC; TIGR01932 526222000549 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 526222000550 HflK protein; Region: hflK; TIGR01933 526222000551 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 526222000552 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222000553 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 526222000554 FeS/SAM binding site; other site 526222000555 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 526222000556 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 526222000557 active site 526222000558 substrate binding site [chemical binding]; other site 526222000559 metal binding site [ion binding]; metal-binding site 526222000560 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 526222000561 RNA/DNA hybrid binding site [nucleotide binding]; other site 526222000562 active site 526222000563 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222000564 Zn2+ binding site [ion binding]; other site 526222000565 Mg2+ binding site [ion binding]; other site 526222000566 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 526222000567 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 526222000568 cytidylate kinase; Provisional; Region: cmk; PRK00023 526222000569 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 526222000570 CMP-binding site; other site 526222000571 The sites determining sugar specificity; other site 526222000572 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 526222000573 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 526222000574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222000575 homodimer interface [polypeptide binding]; other site 526222000576 catalytic residue [active] 526222000577 GTPase RsgA; Reviewed; Region: PRK01889 526222000578 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 526222000579 RNA binding site [nucleotide binding]; other site 526222000580 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 526222000581 GTPase/Zn-binding domain interface [polypeptide binding]; other site 526222000582 GTP/Mg2+ binding site [chemical binding]; other site 526222000583 G4 box; other site 526222000584 G5 box; other site 526222000585 G1 box; other site 526222000586 Switch I region; other site 526222000587 G2 box; other site 526222000588 G3 box; other site 526222000589 Switch II region; other site 526222000590 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 526222000591 Ligand Binding Site [chemical binding]; other site 526222000592 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 526222000593 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 526222000594 4Fe-4S binding domain; Region: Fer4; cl02805 526222000595 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 526222000596 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 526222000597 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 526222000598 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 526222000599 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 526222000600 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222000601 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 526222000602 signal recognition particle protein; Provisional; Region: PRK10867 526222000603 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 526222000604 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 526222000605 P loop; other site 526222000606 GTP binding site [chemical binding]; other site 526222000607 Signal peptide binding domain; Region: SRP_SPB; pfam02978 526222000608 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 526222000609 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 526222000610 hypothetical protein; Provisional; Region: PRK00468 526222000611 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 526222000612 RimM N-terminal domain; Region: RimM; pfam01782 526222000613 PRC-barrel domain; Region: PRC; pfam05239 526222000614 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 526222000615 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 526222000616 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 526222000617 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 526222000618 RNA/DNA hybrid binding site [nucleotide binding]; other site 526222000619 active site 526222000620 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 526222000621 Predicted methyltransferases [General function prediction only]; Region: COG0313 526222000622 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 526222000623 putative SAM binding site [chemical binding]; other site 526222000624 putative homodimer interface [polypeptide binding]; other site 526222000625 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 526222000626 dimerization domain swap beta strand [polypeptide binding]; other site 526222000627 regulatory protein interface [polypeptide binding]; other site 526222000628 active site 526222000629 regulatory phosphorylation site [posttranslational modification]; other site 526222000630 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 526222000631 SmpB-tmRNA interface; other site 526222000632 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222000633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222000634 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 526222000635 dimerization interface [polypeptide binding]; other site 526222000636 FAD binding domain; Region: FAD_binding_4; pfam01565 526222000637 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 526222000638 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 526222000639 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222000640 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 526222000641 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 526222000642 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 526222000643 helicase superfamily c-terminal domain; Region: HELICc; smart00490 526222000644 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 526222000645 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 526222000646 dimerization interface [polypeptide binding]; other site 526222000647 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222000648 dimer interface [polypeptide binding]; other site 526222000649 putative CheW interface [polypeptide binding]; other site 526222000650 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 526222000651 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 526222000652 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 526222000653 active site 526222000654 metal binding site [ion binding]; metal-binding site 526222000655 homotetramer interface [polypeptide binding]; other site 526222000656 VacJ like lipoprotein; Region: VacJ; cl01073 526222000657 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 526222000658 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 526222000659 mce related protein; Region: MCE; pfam02470 526222000660 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 526222000661 Permease; Region: Permease; pfam02405 526222000662 HD domain; Region: HD_3; pfam13023 526222000663 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 526222000664 heterotetramer interface [polypeptide binding]; other site 526222000665 active site pocket [active] 526222000666 cleavage site 526222000667 SurA N-terminal domain; Region: SurA_N_3; cl07813 526222000668 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 526222000669 aconitate hydratase; Validated; Region: PRK07229 526222000670 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 526222000671 substrate binding site [chemical binding]; other site 526222000672 ligand binding site [chemical binding]; other site 526222000673 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 526222000674 substrate binding site [chemical binding]; other site 526222000675 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 526222000676 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 526222000677 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 526222000678 putative active site [active] 526222000679 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 526222000680 ATP-sulfurylase; Region: ATPS; cd00517 526222000681 active site 526222000682 HXXH motif; other site 526222000683 flexible loop; other site 526222000684 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 526222000685 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222000686 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 526222000687 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 526222000688 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 526222000689 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222000690 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222000691 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222000692 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 526222000693 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 526222000694 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 526222000695 tricarballylate utilization protein B; Provisional; Region: PRK15033 526222000696 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 526222000697 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 526222000698 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 526222000699 Walker A/P-loop; other site 526222000700 ATP binding site [chemical binding]; other site 526222000701 Q-loop/lid; other site 526222000702 ABC transporter signature motif; other site 526222000703 Walker B; other site 526222000704 D-loop; other site 526222000705 H-loop/switch region; other site 526222000706 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 526222000707 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 526222000708 dimerization interface [polypeptide binding]; other site 526222000709 ligand binding site [chemical binding]; other site 526222000710 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 526222000711 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 526222000712 TM-ABC transporter signature motif; other site 526222000713 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 526222000714 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 526222000715 TM-ABC transporter signature motif; other site 526222000716 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 526222000717 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 526222000718 Walker A/P-loop; other site 526222000719 ATP binding site [chemical binding]; other site 526222000720 Q-loop/lid; other site 526222000721 ABC transporter signature motif; other site 526222000722 Walker B; other site 526222000723 D-loop; other site 526222000724 H-loop/switch region; other site 526222000725 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222000726 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 526222000727 substrate binding pocket [chemical binding]; other site 526222000728 membrane-bound complex binding site; other site 526222000729 hinge residues; other site 526222000730 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 526222000731 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 526222000732 Uncharacterized conserved protein [Function unknown]; Region: COG3334 526222000733 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 526222000734 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 526222000735 dimerization interface 3.5A [polypeptide binding]; other site 526222000736 active site 526222000737 Protein of unknown function (DUF342); Region: DUF342; pfam03961 526222000738 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 526222000739 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 526222000740 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 526222000741 HIGH motif; other site 526222000742 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 526222000743 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 526222000744 active site 526222000745 KMSKS motif; other site 526222000746 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 526222000747 tRNA binding surface [nucleotide binding]; other site 526222000748 anticodon binding site; other site 526222000749 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 526222000750 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 526222000751 active site 526222000752 SAM binding site [chemical binding]; other site 526222000753 homodimer interface [polypeptide binding]; other site 526222000754 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 526222000755 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 526222000756 active site 526222000757 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 526222000758 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 526222000759 active site 526222000760 substrate binding site [chemical binding]; other site 526222000761 cosubstrate binding site; other site 526222000762 catalytic site [active] 526222000763 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 526222000764 Phosphotransferase enzyme family; Region: APH; pfam01636 526222000765 active site 526222000766 ATP binding site [chemical binding]; other site 526222000767 substrate binding site [chemical binding]; other site 526222000768 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 526222000769 AMMECR1; Region: AMMECR1; pfam01871 526222000770 Cysteine-rich small domain; Region: zf-like; cl00946 526222000771 Cache domain; Region: Cache_1; pfam02743 526222000772 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 526222000773 dimerization interface [polypeptide binding]; other site 526222000774 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 526222000775 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 526222000776 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 526222000777 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222000778 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222000779 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222000780 metal binding site [ion binding]; metal-binding site 526222000781 active site 526222000782 I-site; other site 526222000783 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 526222000784 Cache domain; Region: Cache_1; pfam02743 526222000785 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 526222000786 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222000787 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222000788 metal binding site [ion binding]; metal-binding site 526222000789 active site 526222000790 I-site; other site 526222000791 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 526222000792 active site 526222000793 SAM binding site [chemical binding]; other site 526222000794 homodimer interface [polypeptide binding]; other site 526222000795 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 526222000796 active site 526222000797 putative homodimer interface [polypeptide binding]; other site 526222000798 SAM binding site [chemical binding]; other site 526222000799 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 526222000800 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 526222000801 S-adenosylmethionine binding site [chemical binding]; other site 526222000802 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 526222000803 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 526222000804 active site 526222000805 DNA polymerase IV; Validated; Region: PRK02406 526222000806 DNA binding site [nucleotide binding] 526222000807 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 526222000808 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 526222000809 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 526222000810 catalytic triad [active] 526222000811 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222000812 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 526222000813 binding surface 526222000814 TPR motif; other site 526222000815 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222000816 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 526222000817 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 526222000818 Cache domain; Region: Cache_1; pfam02743 526222000819 HAMP domain; Region: HAMP; pfam00672 526222000820 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222000821 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222000822 dimer interface [polypeptide binding]; other site 526222000823 putative CheW interface [polypeptide binding]; other site 526222000824 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 526222000825 putative catalytic site [active] 526222000826 putative metal binding site [ion binding]; other site 526222000827 putative phosphate binding site [ion binding]; other site 526222000828 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 526222000829 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222000830 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 526222000831 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 526222000832 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 526222000833 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222000834 dimer interface [polypeptide binding]; other site 526222000835 active site 526222000836 metal binding site [ion binding]; metal-binding site 526222000837 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 526222000838 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 526222000839 dimer interface [polypeptide binding]; other site 526222000840 catalytic triad [active] 526222000841 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 526222000842 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 526222000843 catalytic residues [active] 526222000844 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222000845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222000846 active site 526222000847 phosphorylation site [posttranslational modification] 526222000848 intermolecular recognition site; other site 526222000849 dimerization interface [polypeptide binding]; other site 526222000850 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 526222000851 Walker A motif; other site 526222000852 ATP binding site [chemical binding]; other site 526222000853 Walker B motif; other site 526222000854 arginine finger; other site 526222000855 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222000856 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222000857 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 526222000858 putative active site [active] 526222000859 heme pocket [chemical binding]; other site 526222000860 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 526222000861 dimer interface [polypeptide binding]; other site 526222000862 phosphorylation site [posttranslational modification] 526222000863 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 526222000864 ATP binding site [chemical binding]; other site 526222000865 Mg2+ binding site [ion binding]; other site 526222000866 G-X-G motif; other site 526222000867 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 526222000868 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222000869 active site 526222000870 NAD binding site [chemical binding]; other site 526222000871 metal binding site [ion binding]; metal-binding site 526222000872 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 526222000873 catalytic core [active] 526222000874 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 526222000875 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 526222000876 Ligand binding site; other site 526222000877 metal-binding site 526222000878 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222000879 Zn2+ binding site [ion binding]; other site 526222000880 Mg2+ binding site [ion binding]; other site 526222000881 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 526222000882 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 526222000883 XdhC Rossmann domain; Region: XdhC_C; pfam13478 526222000884 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 526222000885 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222000886 acyl-activating enzyme (AAE) consensus motif; other site 526222000887 active site 526222000888 AMP binding site [chemical binding]; other site 526222000889 CoA binding site [chemical binding]; other site 526222000890 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 526222000891 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 526222000892 FeS/SAM binding site; other site 526222000893 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 526222000894 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222000895 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 526222000896 S-adenosylmethionine binding site [chemical binding]; other site 526222000897 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 526222000898 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222000899 Cysteine-rich domain; Region: CCG; pfam02754 526222000900 Cysteine-rich domain; Region: CCG; pfam02754 526222000901 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 526222000902 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 526222000903 catalytic loop [active] 526222000904 iron binding site [ion binding]; other site 526222000905 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 526222000906 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 526222000907 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 526222000908 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 526222000909 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 526222000910 putative MPT binding site; other site 526222000911 Domain of unknown function (DUF364); Region: DUF364; pfam04016 526222000912 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 526222000913 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222000914 dimer interface [polypeptide binding]; other site 526222000915 conserved gate region; other site 526222000916 putative PBP binding loops; other site 526222000917 ABC-ATPase subunit interface; other site 526222000918 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 526222000919 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 526222000920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222000921 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222000922 Walker A/P-loop; other site 526222000923 ATP binding site [chemical binding]; other site 526222000924 Q-loop/lid; other site 526222000925 ABC transporter signature motif; other site 526222000926 Walker B; other site 526222000927 D-loop; other site 526222000928 H-loop/switch region; other site 526222000929 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 526222000930 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222000931 dimer interface [polypeptide binding]; other site 526222000932 conserved gate region; other site 526222000933 putative PBP binding loops; other site 526222000934 ABC-ATPase subunit interface; other site 526222000935 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 526222000936 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 526222000937 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 526222000938 active site 526222000939 catalytic residues [active] 526222000940 DNA binding site [nucleotide binding] 526222000941 Int/Topo IB signature motif; other site 526222000942 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 526222000943 TOBE domain; Region: TOBE; cl01440 526222000944 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222000945 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 526222000946 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 526222000947 dimer interface [polypeptide binding]; other site 526222000948 catalytic triad [active] 526222000949 peroxidatic and resolving cysteines [active] 526222000950 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 526222000951 Type IV secretion system proteins; Region: T4SS; pfam07996 526222000952 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 526222000953 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 526222000954 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 526222000955 Ankyrin repeat; Region: Ank; pfam00023 526222000956 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 526222000957 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 526222000958 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222000959 AAA domain; Region: AAA_23; pfam13476 526222000960 Walker A/P-loop; other site 526222000961 ATP binding site [chemical binding]; other site 526222000962 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 526222000963 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 526222000964 active site 526222000965 DNA binding site [nucleotide binding] 526222000966 Int/Topo IB signature motif; other site 526222000967 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222000968 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222000969 putative substrate translocation pore; other site 526222000970 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 526222000971 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 526222000972 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 526222000973 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 526222000974 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 526222000975 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 526222000976 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 526222000977 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 526222000978 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 526222000979 catalytic loop [active] 526222000980 iron binding site [ion binding]; other site 526222000981 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 526222000982 FAD binding pocket [chemical binding]; other site 526222000983 FAD binding motif [chemical binding]; other site 526222000984 phosphate binding motif [ion binding]; other site 526222000985 beta-alpha-beta structure motif; other site 526222000986 NAD binding pocket [chemical binding]; other site 526222000987 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 526222000988 ApbE family; Region: ApbE; pfam02424 526222000989 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 526222000990 dinuclear metal binding motif [ion binding]; other site 526222000991 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 526222000992 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 526222000993 active site 526222000994 catalytic site [active] 526222000995 DctM-like transporters; Region: DctM; pfam06808 526222000996 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 526222000997 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 526222000998 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 526222000999 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222001000 Transcriptional regulators [Transcription]; Region: PurR; COG1609 526222001001 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 526222001002 DNA binding site [nucleotide binding] 526222001003 domain linker motif; other site 526222001004 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 526222001005 dimerization interface [polypeptide binding]; other site 526222001006 ligand binding site [chemical binding]; other site 526222001007 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 526222001008 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 526222001009 dimerization interface [polypeptide binding]; other site 526222001010 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222001011 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222001012 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 526222001013 putative active site [active] 526222001014 heme pocket [chemical binding]; other site 526222001015 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 526222001016 dimer interface [polypeptide binding]; other site 526222001017 phosphorylation site [posttranslational modification] 526222001018 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 526222001019 ATP binding site [chemical binding]; other site 526222001020 Mg2+ binding site [ion binding]; other site 526222001021 G-X-G motif; other site 526222001022 Response regulator receiver domain; Region: Response_reg; pfam00072 526222001023 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222001024 active site 526222001025 phosphorylation site [posttranslational modification] 526222001026 intermolecular recognition site; other site 526222001027 dimerization interface [polypeptide binding]; other site 526222001028 PAS domain; Region: PAS_9; pfam13426 526222001029 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222001030 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 526222001031 ATP binding site [chemical binding]; other site 526222001032 Mg2+ binding site [ion binding]; other site 526222001033 G-X-G motif; other site 526222001034 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222001035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222001036 active site 526222001037 phosphorylation site [posttranslational modification] 526222001038 intermolecular recognition site; other site 526222001039 dimerization interface [polypeptide binding]; other site 526222001040 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 526222001041 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 526222001042 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222001043 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 526222001044 active site residue [active] 526222001045 Predicted transcriptional regulator [Transcription]; Region: COG1959 526222001046 Transcriptional regulator; Region: Rrf2; cl17282 526222001047 Gram-negative bacterial tonB protein; Region: TonB; cl10048 526222001048 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 526222001049 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 526222001050 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 526222001051 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222001052 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 526222001053 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 526222001054 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 526222001055 transcriptional regulator NanR; Provisional; Region: PRK03837 526222001056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222001057 DNA-binding site [nucleotide binding]; DNA binding site 526222001058 FCD domain; Region: FCD; pfam07729 526222001059 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 526222001060 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 526222001061 [4Fe-4S] binding site [ion binding]; other site 526222001062 molybdopterin cofactor binding site; other site 526222001063 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 526222001064 molybdopterin cofactor binding site; other site 526222001065 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 526222001066 4Fe-4S binding domain; Region: Fer4; cl02805 526222001067 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 526222001068 4Fe-4S binding domain; Region: Fer4; pfam00037 526222001069 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 526222001070 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 526222001071 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 526222001072 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222001073 PAS domain S-box; Region: sensory_box; TIGR00229 526222001074 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 526222001075 putative active site [active] 526222001076 heme pocket [chemical binding]; other site 526222001077 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 526222001078 dimer interface [polypeptide binding]; other site 526222001079 phosphorylation site [posttranslational modification] 526222001080 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 526222001081 ATP binding site [chemical binding]; other site 526222001082 Mg2+ binding site [ion binding]; other site 526222001083 G-X-G motif; other site 526222001084 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222001085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222001086 active site 526222001087 phosphorylation site [posttranslational modification] 526222001088 intermolecular recognition site; other site 526222001089 dimerization interface [polypeptide binding]; other site 526222001090 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 526222001091 Walker A motif; other site 526222001092 ATP binding site [chemical binding]; other site 526222001093 Walker B motif; other site 526222001094 arginine finger; other site 526222001095 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222001096 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 526222001097 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 526222001098 FeS/SAM binding site; other site 526222001099 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 526222001100 biotin synthase; Provisional; Region: PRK07094 526222001101 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 526222001102 FeS/SAM binding site; other site 526222001103 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 526222001104 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 526222001105 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 526222001106 FMN binding site [chemical binding]; other site 526222001107 active site 526222001108 catalytic residues [active] 526222001109 substrate binding site [chemical binding]; other site 526222001110 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 526222001111 thiosulfate reductase PhsA; Provisional; Region: PRK15488 526222001112 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 526222001113 putative [Fe4-S4] binding site [ion binding]; other site 526222001114 putative molybdopterin cofactor binding site [chemical binding]; other site 526222001115 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 526222001116 putative molybdopterin cofactor binding site; other site 526222001117 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 526222001118 4Fe-4S binding domain; Region: Fer4; pfam00037 526222001119 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 526222001120 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 526222001121 active site residue [active] 526222001122 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 526222001123 active site residue [active] 526222001124 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 526222001125 active site residue [active] 526222001126 Rhodanese Homology Domain; Region: RHOD; smart00450 526222001127 active site residue [active] 526222001128 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 526222001129 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 526222001130 putative homodimer interface [polypeptide binding]; other site 526222001131 putative homotetramer interface [polypeptide binding]; other site 526222001132 putative allosteric switch controlling residues; other site 526222001133 putative metal binding site [ion binding]; other site 526222001134 putative homodimer-homodimer interface [polypeptide binding]; other site 526222001135 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 526222001136 Ca2+ binding site [ion binding]; other site 526222001137 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 526222001138 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 526222001139 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 526222001140 putative MPT binding site; other site 526222001141 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 526222001142 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 526222001143 transmembrane helices; other site 526222001144 TrkA-C domain; Region: TrkA_C; pfam02080 526222001145 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222001146 TrkA-C domain; Region: TrkA_C; pfam02080 526222001147 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 526222001148 Response regulator receiver domain; Region: Response_reg; pfam00072 526222001149 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222001150 active site 526222001151 phosphorylation site [posttranslational modification] 526222001152 intermolecular recognition site; other site 526222001153 dimerization interface [polypeptide binding]; other site 526222001154 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 526222001155 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 526222001156 Walker A motif; other site 526222001157 ATP binding site [chemical binding]; other site 526222001158 Walker B motif; other site 526222001159 arginine finger; other site 526222001160 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 526222001161 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222001162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222001163 active site 526222001164 phosphorylation site [posttranslational modification] 526222001165 intermolecular recognition site; other site 526222001166 dimerization interface [polypeptide binding]; other site 526222001167 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 526222001168 Walker A motif; other site 526222001169 ATP binding site [chemical binding]; other site 526222001170 Walker B motif; other site 526222001171 arginine finger; other site 526222001172 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222001173 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222001174 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 526222001175 dimerization interface [polypeptide binding]; other site 526222001176 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 526222001177 dimer interface [polypeptide binding]; other site 526222001178 phosphorylation site [posttranslational modification] 526222001179 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 526222001180 ATP binding site [chemical binding]; other site 526222001181 Mg2+ binding site [ion binding]; other site 526222001182 G-X-G motif; other site 526222001183 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; cd03440 526222001184 active site 2 [active] 526222001185 active site 1 [active] 526222001186 glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins; Region: GH64-TLP-SF; cl02511 526222001187 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 526222001188 type II secretion system protein I; Region: gspI; TIGR01707 526222001189 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 526222001190 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 526222001191 protein binding site [polypeptide binding]; other site 526222001192 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 526222001193 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 526222001194 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 526222001195 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 526222001196 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 526222001197 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 526222001198 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 526222001199 Pilus assembly protein, PilO; Region: PilO; cl01234 526222001200 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 526222001201 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 526222001202 membrane-bound complex binding site; other site 526222001203 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 526222001204 protein binding site [polypeptide binding]; other site 526222001205 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 526222001206 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 526222001207 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 526222001208 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 526222001209 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 526222001210 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 526222001211 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 526222001212 Walker A motif; other site 526222001213 ATP binding site [chemical binding]; other site 526222001214 Walker B motif; other site 526222001215 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 526222001216 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 526222001217 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 526222001218 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222001219 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 526222001220 PAS domain S-box; Region: sensory_box; TIGR00229 526222001221 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 526222001222 putative active site [active] 526222001223 heme pocket [chemical binding]; other site 526222001224 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 526222001225 PAS domain; Region: PAS_9; pfam13426 526222001226 putative active site [active] 526222001227 heme pocket [chemical binding]; other site 526222001228 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222001229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222001230 metal binding site [ion binding]; metal-binding site 526222001231 active site 526222001232 I-site; other site 526222001233 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 526222001234 active site 526222001235 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 526222001236 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 526222001237 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222001238 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 526222001239 EamA-like transporter family; Region: EamA; pfam00892 526222001240 EamA-like transporter family; Region: EamA; pfam00892 526222001241 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 526222001242 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222001243 transmembrane helices; other site 526222001244 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 526222001245 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222001246 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222001247 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222001248 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 526222001249 catalytic residues [active] 526222001250 Sulfatase; Region: Sulfatase; pfam00884 526222001251 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 526222001252 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222001253 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 526222001254 ligand binding site [chemical binding]; other site 526222001255 flexible hinge region; other site 526222001256 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 526222001257 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222001258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222001259 active site 526222001260 phosphorylation site [posttranslational modification] 526222001261 intermolecular recognition site; other site 526222001262 dimerization interface [polypeptide binding]; other site 526222001263 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 526222001264 Walker A motif; other site 526222001265 ATP binding site [chemical binding]; other site 526222001266 Walker B motif; other site 526222001267 arginine finger; other site 526222001268 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 526222001269 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222001270 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 526222001271 dimer interface [polypeptide binding]; other site 526222001272 phosphorylation site [posttranslational modification] 526222001273 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 526222001274 ATP binding site [chemical binding]; other site 526222001275 Mg2+ binding site [ion binding]; other site 526222001276 G-X-G motif; other site 526222001277 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 526222001278 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 526222001279 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 526222001280 Protein of unknown function (DUF770); Region: DUF770; pfam05591 526222001281 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 526222001282 Protein of unknown function (DUF877); Region: DUF877; pfam05943 526222001283 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 526222001284 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 526222001285 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 526222001286 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 526222001287 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 526222001288 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 526222001289 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 526222001290 Walker A motif; other site 526222001291 ATP binding site [chemical binding]; other site 526222001292 Walker B motif; other site 526222001293 arginine finger; other site 526222001294 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 526222001295 Walker A motif; other site 526222001296 ATP binding site [chemical binding]; other site 526222001297 Walker B motif; other site 526222001298 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 526222001299 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 526222001300 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 526222001301 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 526222001302 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 526222001303 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001304 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 526222001305 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001306 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001307 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001308 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001309 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 526222001310 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 526222001311 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001312 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001313 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001314 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001315 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 526222001316 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 526222001317 Protein of unknown function (DUF770); Region: DUF770; cl01402 526222001318 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 526222001319 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 526222001320 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 526222001321 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 526222001322 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 526222001323 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 526222001324 G1 box; other site 526222001325 GTP/Mg2+ binding site [chemical binding]; other site 526222001326 G2 box; other site 526222001327 Switch I region; other site 526222001328 G3 box; other site 526222001329 Switch II region; other site 526222001330 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 526222001331 G4 box; other site 526222001332 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 526222001333 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 526222001334 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 526222001335 FeS/SAM binding site; other site 526222001336 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 526222001337 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 526222001338 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 526222001339 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 526222001340 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 526222001341 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222001342 Coenzyme A binding pocket [chemical binding]; other site 526222001343 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 526222001344 dimer interface [polypeptide binding]; other site 526222001345 [2Fe-2S] cluster binding site [ion binding]; other site 526222001346 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 526222001347 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 526222001348 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 526222001349 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 526222001350 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 526222001351 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 526222001352 Nitrogen regulatory protein P-II; Region: P-II; cl00412 526222001353 Nitrogen regulatory protein P-II; Region: P-II; smart00938 526222001354 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 526222001355 Nitrogen regulatory protein P-II; Region: P-II; smart00938 526222001356 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 526222001357 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 526222001358 Nucleotide-binding sites [chemical binding]; other site 526222001359 Walker A motif; other site 526222001360 Switch I region of nucleotide binding site; other site 526222001361 Fe4S4 binding sites [ion binding]; other site 526222001362 Switch II region of nucleotide binding site; other site 526222001363 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 526222001364 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 526222001365 active site 526222001366 catalytic residues [active] 526222001367 metal binding site [ion binding]; metal-binding site 526222001368 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 526222001369 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222001370 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222001371 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 526222001372 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 526222001373 N-terminal plug; other site 526222001374 ligand-binding site [chemical binding]; other site 526222001375 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 526222001376 muropeptide transporter; Validated; Region: ampG; cl17669 526222001377 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222001378 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 526222001379 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 526222001380 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 526222001381 MarR family; Region: MarR; pfam01047 526222001382 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 526222001383 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 526222001384 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 526222001385 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 526222001386 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 526222001387 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 526222001388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 526222001389 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 526222001390 S-adenosylmethionine binding site [chemical binding]; other site 526222001391 flavodoxin; Provisional; Region: PRK06242 526222001392 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 526222001393 metal binding site 2 [ion binding]; metal-binding site 526222001394 putative DNA binding helix; other site 526222001395 metal binding site 1 [ion binding]; metal-binding site 526222001396 dimer interface [polypeptide binding]; other site 526222001397 structural Zn2+ binding site [ion binding]; other site 526222001398 Uncharacterized conserved protein [Function unknown]; Region: COG2006 526222001399 Domain of unknown function (DUF362); Region: DUF362; pfam04015 526222001400 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 526222001401 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 526222001402 DNA binding residues [nucleotide binding] 526222001403 drug binding residues [chemical binding]; other site 526222001404 dimer interface [polypeptide binding]; other site 526222001405 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 526222001406 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 526222001407 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 526222001408 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 526222001409 Hexamer interface [polypeptide binding]; other site 526222001410 Hexagonal pore residue; other site 526222001411 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 526222001412 Hexamer interface [polypeptide binding]; other site 526222001413 Hexagonal pore residue; other site 526222001414 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 526222001415 putative catalytic cysteine [active] 526222001416 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 526222001417 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 526222001418 dimer interface [polypeptide binding]; other site 526222001419 active site 526222001420 glycine loop; other site 526222001421 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 526222001422 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 526222001423 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 526222001424 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 526222001425 Hexamer interface [polypeptide binding]; other site 526222001426 Hexagonal pore residue; other site 526222001427 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 526222001428 putative catalytic cysteine [active] 526222001429 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 526222001430 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 526222001431 Hexamer interface [polypeptide binding]; other site 526222001432 Putative hexagonal pore residue; other site 526222001433 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 526222001434 Propanediol utilisation protein PduL; Region: PduL; pfam06130 526222001435 Propanediol utilisation protein PduL; Region: PduL; pfam06130 526222001436 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 526222001437 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 526222001438 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 526222001439 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 526222001440 Hexamer/Pentamer interface [polypeptide binding]; other site 526222001441 central pore; other site 526222001442 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 526222001443 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 526222001444 putative hexamer interface [polypeptide binding]; other site 526222001445 putative hexagonal pore; other site 526222001446 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 526222001447 putative hexamer interface [polypeptide binding]; other site 526222001448 putative hexagonal pore; other site 526222001449 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 526222001450 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 526222001451 Hexamer interface [polypeptide binding]; other site 526222001452 Putative hexagonal pore residue; other site 526222001453 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222001454 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 526222001455 putative active site [active] 526222001456 metal binding site [ion binding]; metal-binding site 526222001457 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 526222001458 SLBB domain; Region: SLBB; pfam10531 526222001459 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 526222001460 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 526222001461 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 526222001462 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 526222001463 putative hexamer interface [polypeptide binding]; other site 526222001464 putative hexagonal pore; other site 526222001465 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 526222001466 putative hexamer interface [polypeptide binding]; other site 526222001467 putative hexagonal pore; other site 526222001468 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 526222001469 putative hexamer interface [polypeptide binding]; other site 526222001470 putative hexagonal pore; other site 526222001471 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 526222001472 G1 box; other site 526222001473 GTP/Mg2+ binding site [chemical binding]; other site 526222001474 G2 box; other site 526222001475 G3 box; other site 526222001476 Switch II region; other site 526222001477 G4 box; other site 526222001478 G5 box; other site 526222001479 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 526222001480 AIR carboxylase; Region: AIRC; smart01001 526222001481 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 526222001482 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 526222001483 Ligand Binding Site [chemical binding]; other site 526222001484 hypothetical protein; Provisional; Region: PRK04194 526222001485 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 526222001486 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 526222001487 active site 526222001488 catalytic tetrad [active] 526222001489 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 526222001490 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 526222001491 nucleophile elbow; other site 526222001492 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 526222001493 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 526222001494 trimer interface [polypeptide binding]; other site 526222001495 active site 526222001496 substrate binding site [chemical binding]; other site 526222001497 CoA binding site [chemical binding]; other site 526222001498 Protein of unknown function (DUF554); Region: DUF554; pfam04474 526222001499 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 526222001500 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222001501 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 526222001502 ligand binding site [chemical binding]; other site 526222001503 flexible hinge region; other site 526222001504 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 526222001505 putative switch regulator; other site 526222001506 non-specific DNA interactions [nucleotide binding]; other site 526222001507 DNA binding site [nucleotide binding] 526222001508 sequence specific DNA binding site [nucleotide binding]; other site 526222001509 putative cAMP binding site [chemical binding]; other site 526222001510 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 526222001511 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 526222001512 motif II; other site 526222001513 HDOD domain; Region: HDOD; pfam08668 526222001514 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 526222001515 GAF domain; Region: GAF_3; pfam13492 526222001516 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222001517 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 526222001518 putative active site [active] 526222001519 heme pocket [chemical binding]; other site 526222001520 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 526222001521 dimer interface [polypeptide binding]; other site 526222001522 phosphorylation site [posttranslational modification] 526222001523 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 526222001524 ATP binding site [chemical binding]; other site 526222001525 Mg2+ binding site [ion binding]; other site 526222001526 G-X-G motif; other site 526222001527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222001528 Response regulator receiver domain; Region: Response_reg; pfam00072 526222001529 active site 526222001530 phosphorylation site [posttranslational modification] 526222001531 intermolecular recognition site; other site 526222001532 dimerization interface [polypeptide binding]; other site 526222001533 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 526222001534 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222001535 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 526222001536 putative substrate binding site [chemical binding]; other site 526222001537 putative ATP binding site [chemical binding]; other site 526222001538 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 526222001539 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222001540 dimer interface [polypeptide binding]; other site 526222001541 conserved gate region; other site 526222001542 putative PBP binding loops; other site 526222001543 ABC-ATPase subunit interface; other site 526222001544 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 526222001545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222001546 putative PBP binding loops; other site 526222001547 dimer interface [polypeptide binding]; other site 526222001548 ABC-ATPase subunit interface; other site 526222001549 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 526222001550 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 526222001551 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 526222001552 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 526222001553 Walker A/P-loop; other site 526222001554 ATP binding site [chemical binding]; other site 526222001555 Q-loop/lid; other site 526222001556 ABC transporter signature motif; other site 526222001557 Walker B; other site 526222001558 D-loop; other site 526222001559 H-loop/switch region; other site 526222001560 TOBE domain; Region: TOBE_2; pfam08402 526222001561 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 526222001562 active site 526222001563 catalytic residues [active] 526222001564 Transcriptional regulators [Transcription]; Region: PurR; COG1609 526222001565 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 526222001566 DNA binding site [nucleotide binding] 526222001567 domain linker motif; other site 526222001568 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 526222001569 dimerization interface [polypeptide binding]; other site 526222001570 ligand binding site [chemical binding]; other site 526222001571 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 526222001572 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 526222001573 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 526222001574 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 526222001575 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 526222001576 dimer interface [polypeptide binding]; other site 526222001577 active site 526222001578 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 526222001579 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222001580 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 526222001581 DNA binding residues [nucleotide binding] 526222001582 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 526222001583 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 526222001584 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 526222001585 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 526222001586 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 526222001587 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 526222001588 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 526222001589 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 526222001590 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 526222001591 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 526222001592 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222001593 BNR repeat-like domain; Region: BNR_2; pfam13088 526222001594 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222001595 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 526222001596 flagellar capping protein; Provisional; Region: PRK12765 526222001597 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 526222001598 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 526222001599 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 526222001600 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 526222001601 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 526222001602 active site 526222001603 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 526222001604 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 526222001605 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 526222001606 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 526222001607 Nif-specific regulatory protein; Region: nifA; TIGR01817 526222001608 GAF domain; Region: GAF; pfam01590 526222001609 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 526222001610 Walker A motif; other site 526222001611 ATP binding site [chemical binding]; other site 526222001612 Walker B motif; other site 526222001613 arginine finger; other site 526222001614 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222001615 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222001616 acyl-activating enzyme (AAE) consensus motif; other site 526222001617 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222001618 AMP binding site [chemical binding]; other site 526222001619 active site 526222001620 acyl-activating enzyme (AAE) consensus motif; other site 526222001621 CoA binding site [chemical binding]; other site 526222001622 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 526222001623 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 526222001624 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 526222001625 dimer interface [polypeptide binding]; other site 526222001626 active site 526222001627 Phosphopantetheine attachment site; Region: PP-binding; cl09936 526222001628 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 526222001629 putative acyl-acceptor binding pocket; other site 526222001630 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 526222001631 Ligand binding site; other site 526222001632 Putative Catalytic site; other site 526222001633 DXD motif; other site 526222001634 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 526222001635 lipid biosynthesis B12-binding/radical SAM protein; Region: rSAM_ladder_B12; TIGR04072 526222001636 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 526222001637 B12 binding site [chemical binding]; other site 526222001638 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 526222001639 FeS/SAM binding site; other site 526222001640 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 526222001641 active site 526222001642 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 526222001643 active site 2 [active] 526222001644 dimer interface [polypeptide binding]; other site 526222001645 active site 1 [active] 526222001646 Predicted exporter [General function prediction only]; Region: COG4258 526222001647 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 526222001648 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 526222001649 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 526222001650 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 526222001651 active site 2 [active] 526222001652 active site 1 [active] 526222001653 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 526222001654 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 526222001655 FeS/SAM binding site; other site 526222001656 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 526222001657 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 526222001658 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 526222001659 putative acyl-acceptor binding pocket; other site 526222001660 Phosphopantetheine attachment site; Region: PP-binding; cl09936 526222001661 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 526222001662 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 526222001663 dimer interface [polypeptide binding]; other site 526222001664 active site 526222001665 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 526222001666 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222001667 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 526222001668 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 526222001669 dimer interface [polypeptide binding]; other site 526222001670 active site 526222001671 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 526222001672 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 526222001673 NAD(P) binding site [chemical binding]; other site 526222001674 homotetramer interface [polypeptide binding]; other site 526222001675 homodimer interface [polypeptide binding]; other site 526222001676 active site 526222001677 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222001678 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 526222001679 PAS fold; Region: PAS_3; pfam08447 526222001680 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222001681 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222001682 metal binding site [ion binding]; metal-binding site 526222001683 active site 526222001684 I-site; other site 526222001685 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 526222001686 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222001687 putative active site [active] 526222001688 heme pocket [chemical binding]; other site 526222001689 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 526222001690 putative active site [active] 526222001691 heme pocket [chemical binding]; other site 526222001692 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222001693 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 526222001694 dimer interface [polypeptide binding]; other site 526222001695 phosphorylation site [posttranslational modification] 526222001696 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 526222001697 ATP binding site [chemical binding]; other site 526222001698 Mg2+ binding site [ion binding]; other site 526222001699 G-X-G motif; other site 526222001700 Response regulator receiver domain; Region: Response_reg; pfam00072 526222001701 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222001702 active site 526222001703 phosphorylation site [posttranslational modification] 526222001704 intermolecular recognition site; other site 526222001705 dimerization interface [polypeptide binding]; other site 526222001706 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222001707 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222001708 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222001709 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222001710 Protein export membrane protein; Region: SecD_SecF; cl14618 526222001711 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 526222001712 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222001713 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 526222001714 putative active site [active] 526222001715 heme pocket [chemical binding]; other site 526222001716 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 526222001717 dimer interface [polypeptide binding]; other site 526222001718 phosphorylation site [posttranslational modification] 526222001719 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 526222001720 ATP binding site [chemical binding]; other site 526222001721 Mg2+ binding site [ion binding]; other site 526222001722 G-X-G motif; other site 526222001723 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 526222001724 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 526222001725 active site 526222001726 catalytic tetrad [active] 526222001727 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 526222001728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222001729 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 526222001730 dimerization interface [polypeptide binding]; other site 526222001731 substrate binding pocket [chemical binding]; other site 526222001732 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 526222001733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001734 NAD(P) binding site [chemical binding]; other site 526222001735 active site 526222001736 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 526222001737 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222001738 FeS/SAM binding site; other site 526222001739 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222001740 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 526222001741 S-adenosylmethionine binding site [chemical binding]; other site 526222001742 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222001743 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 526222001744 S-adenosylmethionine binding site [chemical binding]; other site 526222001745 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 526222001746 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 526222001747 PYR/PP interface [polypeptide binding]; other site 526222001748 dimer interface [polypeptide binding]; other site 526222001749 TPP binding site [chemical binding]; other site 526222001750 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 526222001751 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 526222001752 TPP-binding site [chemical binding]; other site 526222001753 dimer interface [polypeptide binding]; other site 526222001754 Phosphotransferase enzyme family; Region: APH; pfam01636 526222001755 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 526222001756 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222001757 FeS/SAM binding site; other site 526222001758 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 526222001759 Uncharacterized conserved protein [Function unknown]; Region: COG1915 526222001760 N-terminal domain of RfaE; Region: RfaE_N; cd02172 526222001761 putative active site [active] 526222001762 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 526222001763 (T/H)XGH motif; other site 526222001764 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 526222001765 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222001766 putative ribose interaction site [chemical binding]; other site 526222001767 putative ADP binding site [chemical binding]; other site 526222001768 NeuB family; Region: NeuB; pfam03102 526222001769 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 526222001770 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 526222001771 Substrate binding site; other site 526222001772 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 526222001773 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 526222001774 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 526222001775 active site 526222001776 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 526222001777 BNR repeat-like domain; Region: BNR_2; pfam13088 526222001778 Asp-box motif; other site 526222001779 N-terminal catalytic domain of alpha-galactosidase; glycoside hydrolase family 57 (GH57); Region: GH57N_PfGalA_like; cd10794 526222001780 putative active site [active] 526222001781 catalytic site [active] 526222001782 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 526222001783 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 526222001784 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 526222001785 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 526222001786 active site 526222001787 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222001788 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 526222001789 S-adenosylmethionine binding site [chemical binding]; other site 526222001790 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 526222001791 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 526222001792 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 526222001793 PYR/PP interface [polypeptide binding]; other site 526222001794 dimer interface [polypeptide binding]; other site 526222001795 TPP binding site [chemical binding]; other site 526222001796 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 526222001797 transketolase; Reviewed; Region: PRK05899 526222001798 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 526222001799 TPP-binding site [chemical binding]; other site 526222001800 dimer interface [polypeptide binding]; other site 526222001801 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 526222001802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001803 NAD(P) binding site [chemical binding]; other site 526222001804 active site 526222001805 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222001806 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 526222001807 S-adenosylmethionine binding site [chemical binding]; other site 526222001808 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 526222001809 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 526222001810 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 526222001811 ligand binding site; other site 526222001812 tetramer interface; other site 526222001813 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 526222001814 active site 526222001815 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 526222001816 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 526222001817 Predicted membrane protein [Function unknown]; Region: COG4125 526222001818 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 526222001819 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 526222001820 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 526222001821 EamA-like transporter family; Region: EamA; pfam00892 526222001822 GTP-binding protein YchF; Reviewed; Region: PRK09601 526222001823 YchF GTPase; Region: YchF; cd01900 526222001824 G1 box; other site 526222001825 GTP/Mg2+ binding site [chemical binding]; other site 526222001826 Switch I region; other site 526222001827 G2 box; other site 526222001828 Switch II region; other site 526222001829 G3 box; other site 526222001830 G4 box; other site 526222001831 G5 box; other site 526222001832 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 526222001833 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 526222001834 active site 526222001835 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222001836 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 526222001837 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222001838 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 526222001839 Methyltransferase domain; Region: Methyltransf_24; pfam13578 526222001840 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 526222001841 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 526222001842 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 526222001843 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_6; cd08820 526222001844 putative active site [active] 526222001845 putative substrate binding site [chemical binding]; other site 526222001846 putative cosubstrate binding site; other site 526222001847 catalytic site [active] 526222001848 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 526222001849 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 526222001850 inhibitor-cofactor binding pocket; inhibition site 526222001851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222001852 catalytic residue [active] 526222001853 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 526222001854 binding surface 526222001855 TPR motif; other site 526222001856 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 526222001857 HI0933-like protein; Region: HI0933_like; pfam03486 526222001858 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 526222001859 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222001860 Coenzyme A binding pocket [chemical binding]; other site 526222001861 Response regulator receiver domain; Region: Response_reg; pfam00072 526222001862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222001863 active site 526222001864 phosphorylation site [posttranslational modification] 526222001865 intermolecular recognition site; other site 526222001866 dimerization interface [polypeptide binding]; other site 526222001867 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 526222001868 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 526222001869 FAD binding pocket [chemical binding]; other site 526222001870 FAD binding motif [chemical binding]; other site 526222001871 phosphate binding motif [ion binding]; other site 526222001872 beta-alpha-beta structure motif; other site 526222001873 NAD binding pocket [chemical binding]; other site 526222001874 Iron coordination center [ion binding]; other site 526222001875 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 526222001876 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 526222001877 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 526222001878 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 526222001879 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 526222001880 4Fe-4S binding domain; Region: Fer4; pfam00037 526222001881 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222001882 4Fe-4S binding domain; Region: Fer4; pfam00037 526222001883 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 526222001884 Cysteine-rich domain; Region: CCG; pfam02754 526222001885 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 526222001886 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 526222001887 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 526222001888 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 526222001889 dimerization interface [polypeptide binding]; other site 526222001890 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 526222001891 PAS domain; Region: PAS_9; pfam13426 526222001892 putative active site [active] 526222001893 heme pocket [chemical binding]; other site 526222001894 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222001895 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222001896 dimer interface [polypeptide binding]; other site 526222001897 putative CheW interface [polypeptide binding]; other site 526222001898 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 526222001899 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 526222001900 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222001901 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 526222001902 S-adenosylmethionine binding site [chemical binding]; other site 526222001903 von Willebrand factor type A domain; Region: VWA_2; pfam13519 526222001904 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 526222001905 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222001906 ligand binding site [chemical binding]; other site 526222001907 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 526222001908 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 526222001909 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 526222001910 NADP binding site [chemical binding]; other site 526222001911 homopentamer interface [polypeptide binding]; other site 526222001912 substrate binding site [chemical binding]; other site 526222001913 active site 526222001914 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 526222001915 Organic solvent tolerance protein; Region: OstA_C; pfam04453 526222001916 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 526222001917 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 526222001918 ATP binding site [chemical binding]; other site 526222001919 Mg2+ binding site [ion binding]; other site 526222001920 G-X-G motif; other site 526222001921 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 526222001922 ATP binding site [chemical binding]; other site 526222001923 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 526222001924 alanine racemase; Reviewed; Region: alr; PRK00053 526222001925 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 526222001926 active site 526222001927 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 526222001928 dimer interface [polypeptide binding]; other site 526222001929 substrate binding site [chemical binding]; other site 526222001930 catalytic residues [active] 526222001931 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 526222001932 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222001933 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 526222001934 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 526222001935 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 526222001936 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 526222001937 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 526222001938 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 526222001939 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 526222001940 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 526222001941 PAS domain; Region: PAS_9; pfam13426 526222001942 putative active site [active] 526222001943 heme pocket [chemical binding]; other site 526222001944 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222001945 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 526222001946 Walker A motif; other site 526222001947 ATP binding site [chemical binding]; other site 526222001948 Walker B motif; other site 526222001949 arginine finger; other site 526222001950 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222001951 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222001952 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 526222001953 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 526222001954 FOG: CBS domain [General function prediction only]; Region: COG0517 526222001955 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 526222001956 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 526222001957 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222001958 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 526222001959 substrate binding pocket [chemical binding]; other site 526222001960 membrane-bound complex binding site; other site 526222001961 hinge residues; other site 526222001962 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 526222001963 binding surface 526222001964 TPR motif; other site 526222001965 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222001966 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222001967 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222001968 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 526222001969 amino acid carrier protein; Region: agcS; TIGR00835 526222001970 TPR repeat; Region: TPR_11; pfam13414 526222001971 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 526222001972 binding surface 526222001973 TPR motif; other site 526222001974 TPR repeat; Region: TPR_11; pfam13414 526222001975 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 526222001976 active site 526222001977 Mn binding site [ion binding]; other site 526222001978 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 526222001979 metal-binding site [ion binding] 526222001980 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 526222001981 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 526222001982 metal-binding site [ion binding] 526222001983 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 526222001984 Soluble P-type ATPase [General function prediction only]; Region: COG4087 526222001985 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 526222001986 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222001987 active site 526222001988 shikimate kinase; Reviewed; Region: aroK; PRK00131 526222001989 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 526222001990 ADP binding site [chemical binding]; other site 526222001991 magnesium binding site [ion binding]; other site 526222001992 putative shikimate binding site; other site 526222001993 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 526222001994 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 526222001995 putative dimer interface [polypeptide binding]; other site 526222001996 active site pocket [active] 526222001997 putative cataytic base [active] 526222001998 thiamine-monophosphate kinase; Region: thiL; TIGR01379 526222001999 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 526222002000 dimerization interface [polypeptide binding]; other site 526222002001 putative ATP binding site [chemical binding]; other site 526222002002 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 526222002003 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 526222002004 domain interfaces; other site 526222002005 active site 526222002006 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 526222002007 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222002008 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 526222002009 S-adenosylmethionine binding site [chemical binding]; other site 526222002010 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 526222002011 Found in ATP-dependent protease La (LON); Region: LON; smart00464 526222002012 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 526222002013 Walker A motif; other site 526222002014 ATP binding site [chemical binding]; other site 526222002015 Walker B motif; other site 526222002016 arginine finger; other site 526222002017 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 526222002018 Acylphosphatase; Region: Acylphosphatase; pfam00708 526222002019 hypothetical protein; Reviewed; Region: PRK00024 526222002020 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 526222002021 helix-hairpin-helix signature motif; other site 526222002022 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 526222002023 MPN+ (JAMM) motif; other site 526222002024 Zinc-binding site [ion binding]; other site 526222002025 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 526222002026 Lipopolysaccharide-assembly; Region: LptE; cl01125 526222002027 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 526222002028 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 526222002029 HIGH motif; other site 526222002030 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 526222002031 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 526222002032 active site 526222002033 KMSKS motif; other site 526222002034 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 526222002035 tRNA binding surface [nucleotide binding]; other site 526222002036 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 526222002037 putative RNA binding site [nucleotide binding]; other site 526222002038 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 526222002039 homopentamer interface [polypeptide binding]; other site 526222002040 active site 526222002041 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 526222002042 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 526222002043 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 526222002044 dimerization interface [polypeptide binding]; other site 526222002045 active site 526222002046 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 526222002047 Lumazine binding domain; Region: Lum_binding; pfam00677 526222002048 Lumazine binding domain; Region: Lum_binding; pfam00677 526222002049 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 526222002050 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 526222002051 catalytic motif [active] 526222002052 Zn binding site [ion binding]; other site 526222002053 RibD C-terminal domain; Region: RibD_C; cl17279 526222002054 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 526222002055 catalytic motif [active] 526222002056 Zn binding site [ion binding]; other site 526222002057 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 526222002058 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 526222002059 dimer interface [polypeptide binding]; other site 526222002060 active site 526222002061 glycine-pyridoxal phosphate binding site [chemical binding]; other site 526222002062 folate binding site [chemical binding]; other site 526222002063 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 526222002064 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 526222002065 dimer interface [polypeptide binding]; other site 526222002066 active site 526222002067 acyl carrier protein; Provisional; Region: acpP; PRK00982 526222002068 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 526222002069 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 526222002070 NAD(P) binding site [chemical binding]; other site 526222002071 homotetramer interface [polypeptide binding]; other site 526222002072 homodimer interface [polypeptide binding]; other site 526222002073 active site 526222002074 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 526222002075 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 526222002076 dimer interface [polypeptide binding]; other site 526222002077 active site 526222002078 CoA binding pocket [chemical binding]; other site 526222002079 putative phosphate acyltransferase; Provisional; Region: PRK05331 526222002080 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 526222002081 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 526222002082 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 526222002083 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 526222002084 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 526222002085 DctM-like transporters; Region: DctM; pfam06808 526222002086 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 526222002087 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 526222002088 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 526222002089 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 526222002090 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222002091 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 526222002092 substrate binding pocket [chemical binding]; other site 526222002093 membrane-bound complex binding site; other site 526222002094 hinge residues; other site 526222002095 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 526222002096 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 526222002097 HIGH motif; other site 526222002098 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 526222002099 active site 526222002100 KMSKS motif; other site 526222002101 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 526222002102 HDOD domain; Region: HDOD; pfam08668 526222002103 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222002104 Zn2+ binding site [ion binding]; other site 526222002105 Mg2+ binding site [ion binding]; other site 526222002106 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 526222002107 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 526222002108 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222002109 dimer interface [polypeptide binding]; other site 526222002110 conserved gate region; other site 526222002111 putative PBP binding loops; other site 526222002112 ABC-ATPase subunit interface; other site 526222002113 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 526222002114 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 526222002115 Walker A/P-loop; other site 526222002116 ATP binding site [chemical binding]; other site 526222002117 Q-loop/lid; other site 526222002118 ABC transporter signature motif; other site 526222002119 Walker B; other site 526222002120 D-loop; other site 526222002121 H-loop/switch region; other site 526222002122 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 526222002123 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222002124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222002125 active site 526222002126 phosphorylation site [posttranslational modification] 526222002127 intermolecular recognition site; other site 526222002128 dimerization interface [polypeptide binding]; other site 526222002129 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 526222002130 Walker A motif; other site 526222002131 ATP binding site [chemical binding]; other site 526222002132 Walker B motif; other site 526222002133 arginine finger; other site 526222002134 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222002135 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222002136 PAS domain; Region: PAS; smart00091 526222002137 putative active site [active] 526222002138 heme pocket [chemical binding]; other site 526222002139 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 526222002140 dimer interface [polypeptide binding]; other site 526222002141 phosphorylation site [posttranslational modification] 526222002142 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 526222002143 ATP binding site [chemical binding]; other site 526222002144 Mg2+ binding site [ion binding]; other site 526222002145 G-X-G motif; other site 526222002146 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 526222002147 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 526222002148 dimer interface [polypeptide binding]; other site 526222002149 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 526222002150 dimer interface [polypeptide binding]; other site 526222002151 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222002152 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 526222002153 Walker A/P-loop; other site 526222002154 ATP binding site [chemical binding]; other site 526222002155 Q-loop/lid; other site 526222002156 ABC transporter signature motif; other site 526222002157 Walker B; other site 526222002158 D-loop; other site 526222002159 H-loop/switch region; other site 526222002160 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222002161 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 526222002162 FtsX-like permease family; Region: FtsX; pfam02687 526222002163 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 526222002164 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 526222002165 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 526222002166 B12 binding site [chemical binding]; other site 526222002167 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 526222002168 FeS/SAM binding site; other site 526222002169 cell division protein FtsZ; Validated; Region: PRK09330 526222002170 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 526222002171 nucleotide binding site [chemical binding]; other site 526222002172 SulA interaction site; other site 526222002173 cell division protein FtsA; Region: ftsA; TIGR01174 526222002174 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 526222002175 nucleotide binding site [chemical binding]; other site 526222002176 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 526222002177 Cell division protein FtsA; Region: FtsA; pfam14450 526222002178 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 526222002179 Cell division protein FtsQ; Region: FtsQ; pfam03799 526222002180 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 526222002181 FAD binding domain; Region: FAD_binding_4; pfam01565 526222002182 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 526222002183 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 526222002184 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 526222002185 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222002186 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222002187 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 526222002188 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 526222002189 active site 526222002190 homodimer interface [polypeptide binding]; other site 526222002191 cell division protein FtsW; Region: ftsW; TIGR02614 526222002192 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 526222002193 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 526222002194 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222002195 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222002196 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 526222002197 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 526222002198 Mg++ binding site [ion binding]; other site 526222002199 putative catalytic motif [active] 526222002200 putative substrate binding site [chemical binding]; other site 526222002201 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 526222002202 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 526222002203 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222002204 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222002205 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 526222002206 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 526222002207 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222002208 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222002209 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 526222002210 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 526222002211 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 526222002212 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 526222002213 MraW methylase family; Region: Methyltransf_5; cl17771 526222002214 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 526222002215 cell division protein MraZ; Reviewed; Region: PRK00326 526222002216 MraZ protein; Region: MraZ; pfam02381 526222002217 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222002218 Zn2+ binding site [ion binding]; other site 526222002219 Mg2+ binding site [ion binding]; other site 526222002220 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 526222002221 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 526222002222 HD domain; Region: HD_3; pfam13023 526222002223 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 526222002224 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 526222002225 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 526222002226 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 526222002227 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]; Region: COG3269 526222002228 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 526222002229 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 526222002230 S-adenosylmethionine binding site [chemical binding]; other site 526222002231 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 526222002232 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 526222002233 Sporulation related domain; Region: SPOR; pfam05036 526222002234 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 526222002235 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 526222002236 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 526222002237 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 526222002238 RNA binding site [nucleotide binding]; other site 526222002239 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 526222002240 RNA binding site [nucleotide binding]; other site 526222002241 S1_RPS1_repeat_hs4: 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_hs4; cd05692 526222002242 RNA binding site [nucleotide binding]; other site 526222002243 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 526222002244 RNA binding site [nucleotide binding]; other site 526222002245 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 526222002246 RNA binding site [nucleotide binding]; other site 526222002247 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 526222002248 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 526222002249 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 526222002250 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 526222002251 Transglycosylase; Region: Transgly; pfam00912 526222002252 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 526222002253 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 526222002254 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 526222002255 MG2 domain; Region: A2M_N; pfam01835 526222002256 Alpha-2-macroglobulin family; Region: A2M; pfam00207 526222002257 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 526222002258 surface patch; other site 526222002259 thioester region; other site 526222002260 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 526222002261 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222002262 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 526222002263 putative active site [active] 526222002264 heme pocket [chemical binding]; other site 526222002265 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 526222002266 dimer interface [polypeptide binding]; other site 526222002267 phosphorylation site [posttranslational modification] 526222002268 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 526222002269 ATP binding site [chemical binding]; other site 526222002270 Mg2+ binding site [ion binding]; other site 526222002271 G-X-G motif; other site 526222002272 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222002273 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222002274 putative substrate translocation pore; other site 526222002275 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 526222002276 ApbE family; Region: ApbE; pfam02424 526222002277 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222002278 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222002279 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; 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:quinone...; Region: QFR_TypeB_TM; cd00581 526222002280 Iron-sulfur protein interface; other site 526222002281 proximal heme binding site [chemical binding]; other site 526222002282 distal heme binding site [chemical binding]; other site 526222002283 dimer interface [polypeptide binding]; other site 526222002284 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 526222002285 L-aspartate oxidase; Provisional; Region: PRK06175 526222002286 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 526222002287 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 526222002288 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 526222002289 catalytic loop [active] 526222002290 iron binding site [ion binding]; other site 526222002291 fumarate hydratase; Provisional; Region: PRK06246 526222002292 Fumarase C-terminus; Region: Fumerase_C; cl00795 526222002293 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 526222002294 Malic enzyme, N-terminal domain; Region: malic; pfam00390 526222002295 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 526222002296 putative NAD(P) binding site [chemical binding]; other site 526222002297 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222002298 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 526222002299 transmembrane helices; other site 526222002300 phosphate acetyltransferase; Reviewed; Region: PRK05632 526222002301 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222002302 DRTGG domain; Region: DRTGG; pfam07085 526222002303 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 526222002304 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 526222002305 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 526222002306 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 526222002307 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 526222002308 dimer interface [polypeptide binding]; other site 526222002309 PYR/PP interface [polypeptide binding]; other site 526222002310 TPP binding site [chemical binding]; other site 526222002311 substrate binding site [chemical binding]; other site 526222002312 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 526222002313 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 526222002314 Domain of unknown function; Region: EKR; smart00890 526222002315 4Fe-4S binding domain; Region: Fer4_6; pfam12837 526222002316 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 526222002317 TPP-binding site [chemical binding]; other site 526222002318 dimer interface [polypeptide binding]; other site 526222002319 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 526222002320 RimK-like ATP-grasp domain; Region: RimK; pfam08443 526222002321 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 526222002322 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 526222002323 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 526222002324 Active Sites [active] 526222002325 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 526222002326 ligand binding site [chemical binding]; other site 526222002327 active site 526222002328 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 526222002329 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 526222002330 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 526222002331 prolyl-tRNA synthetase; Provisional; Region: PRK09194 526222002332 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 526222002333 dimer interface [polypeptide binding]; other site 526222002334 motif 1; other site 526222002335 active site 526222002336 motif 2; other site 526222002337 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 526222002338 putative deacylase active site [active] 526222002339 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 526222002340 active site 526222002341 motif 3; other site 526222002342 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 526222002343 anticodon binding site; other site 526222002344 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 526222002345 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 526222002346 generic binding surface II; other site 526222002347 generic binding surface I; other site 526222002348 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 526222002349 Peptidase family M23; Region: Peptidase_M23; pfam01551 526222002350 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14067 526222002351 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 526222002352 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 526222002353 substrate binding pocket [chemical binding]; other site 526222002354 chain length determination region; other site 526222002355 substrate-Mg2+ binding site; other site 526222002356 catalytic residues [active] 526222002357 aspartate-rich region 1; other site 526222002358 active site lid residues [active] 526222002359 aspartate-rich region 2; other site 526222002360 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 526222002361 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 526222002362 TPP-binding site; other site 526222002363 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 526222002364 PYR/PP interface [polypeptide binding]; other site 526222002365 dimer interface [polypeptide binding]; other site 526222002366 TPP binding site [chemical binding]; other site 526222002367 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 526222002368 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 526222002369 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 526222002370 acyl-activating enzyme (AAE) consensus motif; other site 526222002371 putative AMP binding site [chemical binding]; other site 526222002372 putative active site [active] 526222002373 putative CoA binding site [chemical binding]; other site 526222002374 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 526222002375 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222002376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222002377 active site 526222002378 phosphorylation site [posttranslational modification] 526222002379 intermolecular recognition site; other site 526222002380 dimerization interface [polypeptide binding]; other site 526222002381 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222002382 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 526222002383 substrate binding pocket [chemical binding]; other site 526222002384 membrane-bound complex binding site; other site 526222002385 hinge residues; other site 526222002386 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 526222002387 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 526222002388 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 526222002389 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 526222002390 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 526222002391 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 526222002392 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 526222002393 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 526222002394 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 526222002395 inhibitor-cofactor binding pocket; inhibition site 526222002396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222002397 catalytic residue [active] 526222002398 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 526222002399 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 526222002400 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 526222002401 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 526222002402 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 526222002403 active site 526222002404 SAM binding site [chemical binding]; other site 526222002405 homodimer interface [polypeptide binding]; other site 526222002406 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222002407 heme-binding residues [chemical binding]; other site 526222002408 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 526222002409 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 526222002410 S-adenosylmethionine binding site [chemical binding]; other site 526222002411 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 526222002412 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 526222002413 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 526222002414 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 526222002415 nucleosidase; Provisional; Region: PRK05634 526222002416 futalosine nucleosidase; Region: fut_nucase; TIGR03664 526222002417 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 526222002418 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 526222002419 substrate binding pocket [chemical binding]; other site 526222002420 chain length determination region; other site 526222002421 substrate-Mg2+ binding site; other site 526222002422 catalytic residues [active] 526222002423 aspartate-rich region 1; other site 526222002424 active site lid residues [active] 526222002425 aspartate-rich region 2; other site 526222002426 HDOD domain; Region: HDOD; pfam08668 526222002427 PAS domain S-box; Region: sensory_box; TIGR00229 526222002428 PAS domain; Region: PAS; smart00091 526222002429 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222002430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002431 metal binding site [ion binding]; metal-binding site 526222002432 active site 526222002433 I-site; other site 526222002434 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 526222002435 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 526222002436 dimerization interface [polypeptide binding]; other site 526222002437 ATP binding site [chemical binding]; other site 526222002438 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 526222002439 dimerization interface [polypeptide binding]; other site 526222002440 ATP binding site [chemical binding]; other site 526222002441 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 526222002442 PHP domain; Region: PHP; pfam02811 526222002443 active site 526222002444 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 526222002445 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 526222002446 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 526222002447 ring oligomerisation interface [polypeptide binding]; other site 526222002448 ATP/Mg binding site [chemical binding]; other site 526222002449 stacking interactions; other site 526222002450 hinge regions; other site 526222002451 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 526222002452 oligomerisation interface [polypeptide binding]; other site 526222002453 mobile loop; other site 526222002454 roof hairpin; other site 526222002455 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 526222002456 IHF dimer interface [polypeptide binding]; other site 526222002457 IHF - DNA interface [nucleotide binding]; other site 526222002458 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 526222002459 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 526222002460 cobalt transport protein CbiM; Validated; Region: PRK06265 526222002461 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 526222002462 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222002463 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 526222002464 putative active site [active] 526222002465 heme pocket [chemical binding]; other site 526222002466 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 526222002467 dimer interface [polypeptide binding]; other site 526222002468 phosphorylation site [posttranslational modification] 526222002469 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 526222002470 ATP binding site [chemical binding]; other site 526222002471 Mg2+ binding site [ion binding]; other site 526222002472 G-X-G motif; other site 526222002473 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222002474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222002475 active site 526222002476 phosphorylation site [posttranslational modification] 526222002477 intermolecular recognition site; other site 526222002478 dimerization interface [polypeptide binding]; other site 526222002479 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 526222002480 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 526222002481 active site 526222002482 catalytic residues [active] 526222002483 metal binding site [ion binding]; metal-binding site 526222002484 homodimer binding site [polypeptide binding]; other site 526222002485 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 526222002486 carboxyltransferase (CT) interaction site; other site 526222002487 biotinylation site [posttranslational modification]; other site 526222002488 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 526222002489 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 526222002490 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 526222002491 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 526222002492 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 526222002493 Uncharacterized conserved protein [Function unknown]; Region: COG1683 526222002494 Flagellin N-methylase; Region: FliB; pfam03692 526222002495 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 526222002496 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 526222002497 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 526222002498 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 526222002499 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 526222002500 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 526222002501 Amidase; Region: Amidase; cl11426 526222002502 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 526222002503 catalytic triad [active] 526222002504 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222002505 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 526222002506 FecR protein; Region: FecR; pfam04773 526222002507 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 526222002508 FecR protein; Region: FecR; pfam04773 526222002509 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 526222002510 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 526222002511 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 526222002512 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 526222002513 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 526222002514 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 526222002515 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 526222002516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 526222002517 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 526222002518 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 526222002519 binding surface 526222002520 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222002521 TPR motif; other site 526222002522 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222002523 TPR repeat; Region: TPR_11; pfam13414 526222002524 Src homology 2 (SH2) domain; Region: SH2; cl15255 526222002525 phosphotyrosine binding pocket [polypeptide binding]; other site 526222002526 hydrophobic binding pocket [polypeptide binding]; other site 526222002527 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 526222002528 TrkA-N domain; Region: TrkA_N; pfam02254 526222002529 TrkA-C domain; Region: TrkA_C; pfam02080 526222002530 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 526222002531 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 526222002532 ABC transporter ATPase component; Reviewed; Region: PRK11147 526222002533 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222002534 Walker A/P-loop; other site 526222002535 ATP binding site [chemical binding]; other site 526222002536 Q-loop/lid; other site 526222002537 ABC transporter signature motif; other site 526222002538 Walker B; other site 526222002539 D-loop; other site 526222002540 H-loop/switch region; other site 526222002541 ABC transporter; Region: ABC_tran_2; pfam12848 526222002542 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 526222002543 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 526222002544 putative binding surface; other site 526222002545 active site 526222002546 flavodoxin, short chain; Region: flav_short; TIGR01753 526222002547 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 526222002548 Chorismate mutase type II; Region: CM_2; smart00830 526222002549 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 526222002550 active site 526222002551 dimer interface [polypeptide binding]; other site 526222002552 metal binding site [ion binding]; metal-binding site 526222002553 cystathionine beta-lyase; Provisional; Region: PRK05967 526222002554 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 526222002555 homodimer interface [polypeptide binding]; other site 526222002556 substrate-cofactor binding pocket; other site 526222002557 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222002558 catalytic residue [active] 526222002559 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 526222002560 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 526222002561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222002562 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 526222002563 PilZ domain; Region: PilZ; pfam07238 526222002564 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 526222002565 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 526222002566 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 526222002567 THF binding site; other site 526222002568 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 526222002569 substrate binding site [chemical binding]; other site 526222002570 THF binding site; other site 526222002571 zinc-binding site [ion binding]; other site 526222002572 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 526222002573 FAD binding site [chemical binding]; other site 526222002574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222002575 dimer interface [polypeptide binding]; other site 526222002576 conserved gate region; other site 526222002577 putative PBP binding loops; other site 526222002578 ABC-ATPase subunit interface; other site 526222002579 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 526222002580 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 526222002581 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 526222002582 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 526222002583 Walker A/P-loop; other site 526222002584 ATP binding site [chemical binding]; other site 526222002585 Q-loop/lid; other site 526222002586 ABC transporter signature motif; other site 526222002587 Walker B; other site 526222002588 D-loop; other site 526222002589 H-loop/switch region; other site 526222002590 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 526222002591 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 526222002592 Cytochrome c; Region: Cytochrom_C; pfam00034 526222002593 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 526222002594 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 526222002595 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 526222002596 ATP binding site [chemical binding]; other site 526222002597 Mg++ binding site [ion binding]; other site 526222002598 motif III; other site 526222002599 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 526222002600 nucleotide binding region [chemical binding]; other site 526222002601 ATP-binding site [chemical binding]; other site 526222002602 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 526222002603 RNA binding site [nucleotide binding]; other site 526222002604 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 526222002605 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 526222002606 homodimer interface [polypeptide binding]; other site 526222002607 putative active site [active] 526222002608 catalytic site [active] 526222002609 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 526222002610 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 526222002611 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 526222002612 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 526222002613 TSCPD domain; Region: TSCPD; cl14834 526222002614 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 526222002615 dimer interface [polypeptide binding]; other site 526222002616 Citrate synthase; Region: Citrate_synt; pfam00285 526222002617 active site 526222002618 citrylCoA binding site [chemical binding]; other site 526222002619 NADH binding [chemical binding]; other site 526222002620 cationic pore residues; other site 526222002621 oxalacetate/citrate binding site [chemical binding]; other site 526222002622 coenzyme A binding site [chemical binding]; other site 526222002623 catalytic triad [active] 526222002624 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 526222002625 PAS domain; Region: PAS_9; pfam13426 526222002626 putative active site [active] 526222002627 heme pocket [chemical binding]; other site 526222002628 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222002629 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 526222002630 Walker A motif; other site 526222002631 ATP binding site [chemical binding]; other site 526222002632 Walker B motif; other site 526222002633 arginine finger; other site 526222002634 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222002635 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 526222002636 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 526222002637 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 526222002638 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 526222002639 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 526222002640 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 526222002641 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222002642 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 526222002643 S-adenosylmethionine binding site [chemical binding]; other site 526222002644 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 526222002645 active site 1 [active] 526222002646 dimer interface [polypeptide binding]; other site 526222002647 hexamer interface [polypeptide binding]; other site 526222002648 active site 2 [active] 526222002649 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 526222002650 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 526222002651 dimer interface [polypeptide binding]; other site 526222002652 putative functional site; other site 526222002653 putative MPT binding site; other site 526222002654 PBP superfamily domain; Region: PBP_like; pfam12727 526222002655 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 526222002656 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 526222002657 dimer interface [polypeptide binding]; other site 526222002658 putative functional site; other site 526222002659 putative MPT binding site; other site 526222002660 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 526222002661 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222002662 Putative Fe-S cluster; Region: FeS; cl17515 526222002663 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 526222002664 homohexameric interface [polypeptide binding]; other site 526222002665 feedback inhibition sensing region; other site 526222002666 nucleotide binding site [chemical binding]; other site 526222002667 N-acetyl-L-glutamate binding site [chemical binding]; other site 526222002668 hypothetical protein; Provisional; Region: PRK10659 526222002669 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 526222002670 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 526222002671 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 526222002672 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 526222002673 PilZ domain; Region: PilZ; pfam07238 526222002674 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222002675 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222002676 putative substrate translocation pore; other site 526222002677 Ion channel; Region: Ion_trans_2; pfam07885 526222002678 gamma-glutamyl kinase; Provisional; Region: PRK05429 526222002679 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 526222002680 nucleotide binding site [chemical binding]; other site 526222002681 homotetrameric interface [polypeptide binding]; other site 526222002682 putative phosphate binding site [ion binding]; other site 526222002683 putative allosteric binding site; other site 526222002684 PUA domain; Region: PUA; pfam01472 526222002685 GTPase CgtA; Reviewed; Region: obgE; PRK12299 526222002686 GTP1/OBG; Region: GTP1_OBG; pfam01018 526222002687 Obg GTPase; Region: Obg; cd01898 526222002688 G1 box; other site 526222002689 GTP/Mg2+ binding site [chemical binding]; other site 526222002690 Switch I region; other site 526222002691 G2 box; other site 526222002692 G3 box; other site 526222002693 Switch II region; other site 526222002694 G4 box; other site 526222002695 G5 box; other site 526222002696 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 526222002697 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 526222002698 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 526222002699 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 526222002700 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 526222002701 FeS/SAM binding site; other site 526222002702 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222002703 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 526222002704 S-adenosylmethionine binding site [chemical binding]; other site 526222002705 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 526222002706 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222002707 active site 526222002708 Response regulator receiver domain; Region: Response_reg; pfam00072 526222002709 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222002710 active site 526222002711 phosphorylation site [posttranslational modification] 526222002712 intermolecular recognition site; other site 526222002713 dimerization interface [polypeptide binding]; other site 526222002714 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 526222002715 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 526222002716 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 526222002717 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 526222002718 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 526222002719 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 526222002720 putative FMN binding site [chemical binding]; other site 526222002721 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 526222002722 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 526222002723 Walker A/P-loop; other site 526222002724 ATP binding site [chemical binding]; other site 526222002725 Q-loop/lid; other site 526222002726 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 526222002727 ABC transporter signature motif; other site 526222002728 Walker B; other site 526222002729 D-loop; other site 526222002730 H-loop/switch region; other site 526222002731 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 526222002732 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222002733 dimer interface [polypeptide binding]; other site 526222002734 conserved gate region; other site 526222002735 putative PBP binding loops; other site 526222002736 ABC-ATPase subunit interface; other site 526222002737 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 526222002738 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222002739 dimer interface [polypeptide binding]; other site 526222002740 conserved gate region; other site 526222002741 ABC-ATPase subunit interface; other site 526222002742 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222002743 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222002744 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 526222002745 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 526222002746 Protein of unknown function (DUF328); Region: DUF328; cl01143 526222002747 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222002748 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 526222002749 S-adenosylmethionine binding site [chemical binding]; other site 526222002750 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 526222002751 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222002752 FeS/SAM binding site; other site 526222002753 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 526222002754 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 526222002755 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222002756 FeS/SAM binding site; other site 526222002757 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 526222002758 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 526222002759 active site 526222002760 dimer interface [polypeptide binding]; other site 526222002761 N-terminal domain of RfaE; Region: RfaE_N; cd02172 526222002762 putative active site [active] 526222002763 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 526222002764 (T/H)XGH motif; other site 526222002765 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222002766 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 526222002767 substrate binding site [chemical binding]; other site 526222002768 ATP binding site [chemical binding]; other site 526222002769 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 526222002770 PAS domain; Region: PAS_9; pfam13426 526222002771 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222002772 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002773 dimer interface [polypeptide binding]; other site 526222002774 putative CheW interface [polypeptide binding]; other site 526222002775 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222002776 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222002777 Flavodoxin domain; Region: Flavodoxin_5; cl17428 526222002778 4Fe-4S binding domain; Region: Fer4; pfam00037 526222002779 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222002780 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 526222002781 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 526222002782 putative [4Fe-4S] binding site [ion binding]; other site 526222002783 putative molybdopterin cofactor binding site [chemical binding]; other site 526222002784 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 526222002785 molybdopterin cofactor binding site; other site 526222002786 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 526222002787 zinc binding site [ion binding]; other site 526222002788 putative ligand binding site [chemical binding]; other site 526222002789 PAS domain S-box; Region: sensory_box; TIGR00229 526222002790 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 526222002791 putative active site [active] 526222002792 heme pocket [chemical binding]; other site 526222002793 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222002794 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 526222002795 dimer interface [polypeptide binding]; other site 526222002796 phosphorylation site [posttranslational modification] 526222002797 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 526222002798 ATP binding site [chemical binding]; other site 526222002799 Mg2+ binding site [ion binding]; other site 526222002800 G-X-G motif; other site 526222002801 Sel1-like repeats; Region: SEL1; smart00671 526222002802 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 526222002803 Sel1-like repeats; Region: SEL1; smart00671 526222002804 Sel1-like repeats; Region: SEL1; smart00671 526222002805 Sel1-like repeats; Region: SEL1; smart00671 526222002806 Sel1-like repeats; Region: SEL1; smart00671 526222002807 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 526222002808 Sel1-like repeats; Region: SEL1; smart00671 526222002809 Sel1-like repeats; Region: SEL1; smart00671 526222002810 Sel1-like repeats; Region: SEL1; smart00671 526222002811 Sel1-like repeats; Region: SEL1; smart00671 526222002812 Sel1-like repeats; Region: SEL1; smart00671 526222002813 Sel1-like repeats; Region: SEL1; smart00671 526222002814 Sel1-like repeats; Region: SEL1; smart00671 526222002815 Caspase domain; Region: Peptidase_C14; pfam00656 526222002816 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 526222002817 active site 526222002818 catalytic triad [active] 526222002819 Glutaredoxin; Region: Glutaredoxin; pfam00462 526222002820 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222002821 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222002822 active site 526222002823 phosphorylation site [posttranslational modification] 526222002824 intermolecular recognition site; other site 526222002825 dimerization interface [polypeptide binding]; other site 526222002826 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 526222002827 cyclase homology domain; Region: CHD; cd07302 526222002828 nucleotidyl binding site; other site 526222002829 metal binding site [ion binding]; metal-binding site 526222002830 dimer interface [polypeptide binding]; other site 526222002831 FOG: CBS domain [General function prediction only]; Region: COG0517 526222002832 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 526222002833 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 526222002834 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 526222002835 CHASE3 domain; Region: CHASE3; cl05000 526222002836 HAMP domain; Region: HAMP; pfam00672 526222002837 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002838 dimer interface [polypeptide binding]; other site 526222002839 putative CheW interface [polypeptide binding]; other site 526222002840 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 526222002841 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 526222002842 active site 526222002843 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 526222002844 active site 526222002845 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 526222002846 active site 526222002847 dimer interfaces [polypeptide binding]; other site 526222002848 catalytic residues [active] 526222002849 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 526222002850 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 526222002851 decamer (pentamer of dimers) interface [polypeptide binding]; other site 526222002852 catalytic triad [active] 526222002853 dimer interface [polypeptide binding]; other site 526222002854 peroxidatic and resolving cysteines [active] 526222002855 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 526222002856 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 526222002857 nucleotide binding site [chemical binding]; other site 526222002858 substrate binding site [chemical binding]; other site 526222002859 Transcriptional regulator PadR-like family; Region: PadR; cl17335 526222002860 Predicted transcriptional regulators [Transcription]; Region: COG1695 526222002861 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222002862 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 526222002863 substrate binding pocket [chemical binding]; other site 526222002864 membrane-bound complex binding site; other site 526222002865 hinge residues; other site 526222002866 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 526222002867 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 526222002868 Predicted transcriptional regulators [Transcription]; Region: COG1733 526222002869 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 526222002870 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222002871 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 526222002872 putative active site [active] 526222002873 metal binding site [ion binding]; metal-binding site 526222002874 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 526222002875 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222002876 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222002877 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 526222002878 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 526222002879 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222002880 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 526222002881 transmembrane helices; other site 526222002882 HAMP domain; Region: HAMP; pfam00672 526222002883 PAS domain; Region: PAS; smart00091 526222002884 PAS domain; Region: PAS_9; pfam13426 526222002885 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222002886 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002887 dimer interface [polypeptide binding]; other site 526222002888 putative CheW interface [polypeptide binding]; other site 526222002889 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222002890 Peptidase family M48; Region: Peptidase_M48; cl12018 526222002891 TPR repeat; Region: TPR_11; pfam13414 526222002892 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 526222002893 binding surface 526222002894 TPR motif; other site 526222002895 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222002896 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 526222002897 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 526222002898 Walker A/P-loop; other site 526222002899 ATP binding site [chemical binding]; other site 526222002900 Q-loop/lid; other site 526222002901 ABC transporter signature motif; other site 526222002902 Walker B; other site 526222002903 D-loop; other site 526222002904 H-loop/switch region; other site 526222002905 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 526222002906 PAS domain S-box; Region: sensory_box; TIGR00229 526222002907 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 526222002908 putative active site [active] 526222002909 heme pocket [chemical binding]; other site 526222002910 GAF domain; Region: GAF_2; pfam13185 526222002911 GAF domain; Region: GAF_3; pfam13492 526222002912 PAS fold; Region: PAS_4; pfam08448 526222002913 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 526222002914 putative active site [active] 526222002915 heme pocket [chemical binding]; other site 526222002916 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222002917 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002918 metal binding site [ion binding]; metal-binding site 526222002919 active site 526222002920 I-site; other site 526222002921 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 526222002922 dimerization interface [polypeptide binding]; other site 526222002923 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222002924 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002925 dimer interface [polypeptide binding]; other site 526222002926 putative CheW interface [polypeptide binding]; other site 526222002927 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 526222002928 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222002929 heme-binding residues [chemical binding]; other site 526222002930 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 526222002931 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 526222002932 FMN-binding domain; Region: FMN_bind; cl01081 526222002933 electron transport complex RsxE subunit; Provisional; Region: PRK12405 526222002934 Predicted NADH:ubiquinone oxidoreductase, subunit RnfA [Energy production and conversion]; Region: RnfA; COG4657 526222002935 ferredoxin; Validated; Region: PRK07118 526222002936 4Fe-4S binding domain; Region: Fer4; pfam00037 526222002937 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222002938 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 526222002939 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222002940 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 526222002941 ApbE family; Region: ApbE; pfam02424 526222002942 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222002943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002944 metal binding site [ion binding]; metal-binding site 526222002945 active site 526222002946 I-site; other site 526222002947 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 526222002948 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222002949 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 526222002950 substrate binding pocket [chemical binding]; other site 526222002951 membrane-bound complex binding site; other site 526222002952 hinge residues; other site 526222002953 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222002954 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002955 metal binding site [ion binding]; metal-binding site 526222002956 active site 526222002957 I-site; other site 526222002958 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 526222002959 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 526222002960 ligand binding site [chemical binding]; other site 526222002961 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 526222002962 catalytic residues [active] 526222002963 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 526222002964 dimerization interface [polypeptide binding]; other site 526222002965 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222002966 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002967 metal binding site [ion binding]; metal-binding site 526222002968 active site 526222002969 I-site; other site 526222002970 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 526222002971 HAMP domain; Region: HAMP; pfam00672 526222002972 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222002973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002974 dimer interface [polypeptide binding]; other site 526222002975 putative CheW interface [polypeptide binding]; other site 526222002976 Hemerythrin; Region: Hemerythrin; cd12107 526222002977 Fe binding site [ion binding]; other site 526222002978 Ion channel; Region: Ion_trans_2; pfam07885 526222002979 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 526222002980 TrkA-N domain; Region: TrkA_N; pfam02254 526222002981 TrkA-C domain; Region: TrkA_C; pfam02080 526222002982 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 526222002983 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 526222002984 dimerization interface [polypeptide binding]; other site 526222002985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222002986 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 526222002987 ATP binding site [chemical binding]; other site 526222002988 Mg2+ binding site [ion binding]; other site 526222002989 G-X-G motif; other site 526222002990 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 526222002991 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 526222002992 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 526222002993 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 526222002994 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222002995 active site 526222002996 phosphorylation site [posttranslational modification] 526222002997 intermolecular recognition site; other site 526222002998 dimerization interface [polypeptide binding]; other site 526222002999 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 526222003000 DNA binding site [nucleotide binding] 526222003001 flagellin; Provisional; Region: PRK12802 526222003002 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222003003 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222003004 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 526222003005 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222003006 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 526222003007 DNA binding residues [nucleotide binding] 526222003008 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 526222003009 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 526222003010 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 526222003011 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 526222003012 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 526222003013 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 526222003014 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 526222003015 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 526222003016 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222003017 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 526222003018 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 526222003019 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 526222003020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222003021 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222003022 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222003023 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 526222003024 dimer interface [polypeptide binding]; other site 526222003025 putative tRNA-binding site [nucleotide binding]; other site 526222003026 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 526222003027 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 526222003028 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222003029 Protein export membrane protein; Region: SecD_SecF; cl14618 526222003030 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222003031 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222003032 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222003033 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222003034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222003035 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222003036 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 526222003037 putative substrate translocation pore; other site 526222003038 Uncharacterized conserved protein [Function unknown]; Region: COG1359 526222003039 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 526222003040 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 526222003041 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 526222003042 DNA binding site [nucleotide binding] 526222003043 active site 526222003044 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003045 active site 526222003046 phosphorylation site [posttranslational modification] 526222003047 intermolecular recognition site; other site 526222003048 dimerization interface [polypeptide binding]; other site 526222003049 TPR repeat; Region: TPR_11; pfam13414 526222003050 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 526222003051 binding surface 526222003052 TPR motif; other site 526222003053 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222003054 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 526222003055 binding surface 526222003056 TPR motif; other site 526222003057 PAS fold; Region: PAS_4; pfam08448 526222003058 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 526222003059 putative active site [active] 526222003060 heme pocket [chemical binding]; other site 526222003061 GAF domain; Region: GAF_2; pfam13185 526222003062 GAF domain; Region: GAF_3; pfam13492 526222003063 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 526222003064 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222003065 putative active site [active] 526222003066 heme pocket [chemical binding]; other site 526222003067 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 526222003068 dimer interface [polypeptide binding]; other site 526222003069 phosphorylation site [posttranslational modification] 526222003070 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 526222003071 ATP binding site [chemical binding]; other site 526222003072 Mg2+ binding site [ion binding]; other site 526222003073 G-X-G motif; other site 526222003074 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003075 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003076 active site 526222003077 phosphorylation site [posttranslational modification] 526222003078 intermolecular recognition site; other site 526222003079 dimerization interface [polypeptide binding]; other site 526222003080 Protein of unknown function (DUF523); Region: DUF523; pfam04463 526222003081 Uncharacterized conserved protein [Function unknown]; Region: COG3272 526222003082 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 526222003083 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 526222003084 NADH(P)-binding; Region: NAD_binding_10; pfam13460 526222003085 putative NAD(P) binding site [chemical binding]; other site 526222003086 putative active site [active] 526222003087 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 526222003088 photolyase PhrII; Region: phr2; TIGR00591 526222003089 DNA photolyase; Region: DNA_photolyase; pfam00875 526222003090 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 526222003091 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 526222003092 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 526222003093 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 526222003094 putative ligand binding site [chemical binding]; other site 526222003095 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 526222003096 methionine sulfoxide reductase A; Provisional; Region: PRK14054 526222003097 methionine sulfoxide reductase B; Provisional; Region: PRK00222 526222003098 SelR domain; Region: SelR; pfam01641 526222003099 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 526222003100 active site 526222003101 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 526222003102 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 526222003103 Isochorismatase family; Region: Isochorismatase; pfam00857 526222003104 catalytic triad [active] 526222003105 conserved cis-peptide bond; other site 526222003106 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 526222003107 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 526222003108 conserved cys residue [active] 526222003109 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222003110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222003111 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222003112 VacJ like lipoprotein; Region: VacJ; cl01073 526222003113 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 526222003114 Regulator protein PHA-1; Region: PHA-1; pfam06542 526222003115 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 526222003116 MarR family; Region: MarR_2; pfam12802 526222003117 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 526222003118 S-adenosylmethionine binding site [chemical binding]; other site 526222003119 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 526222003120 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 526222003121 active site 526222003122 motif I; other site 526222003123 motif II; other site 526222003124 TPR repeat; Region: TPR_11; pfam13414 526222003125 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 526222003126 binding surface 526222003127 TPR motif; other site 526222003128 TPR repeat; Region: TPR_11; pfam13414 526222003129 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 526222003130 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 526222003131 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 526222003132 catalytic site [active] 526222003133 subunit interface [polypeptide binding]; other site 526222003134 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 526222003135 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 526222003136 Ligand binding site; other site 526222003137 oligomer interface; other site 526222003138 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 526222003139 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 526222003140 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 526222003141 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 526222003142 ATP-grasp domain; Region: ATP-grasp_4; cl17255 526222003143 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 526222003144 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 526222003145 DsrC like protein; Region: DsrC; pfam04358 526222003146 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222003147 GAF domain; Region: GAF; pfam01590 526222003148 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222003149 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 526222003150 PAS fold; Region: PAS; pfam00989 526222003151 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 526222003152 cyclase homology domain; Region: CHD; cd07302 526222003153 nucleotidyl binding site; other site 526222003154 metal binding site [ion binding]; metal-binding site 526222003155 dimer interface [polypeptide binding]; other site 526222003156 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 526222003157 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 526222003158 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 526222003159 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 526222003160 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 526222003161 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 526222003162 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222003163 acyl-activating enzyme (AAE) consensus motif; other site 526222003164 AMP binding site [chemical binding]; other site 526222003165 active site 526222003166 CoA binding site [chemical binding]; other site 526222003167 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 526222003168 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 526222003169 intersubunit interface [polypeptide binding]; other site 526222003170 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 526222003171 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 526222003172 ABC-ATPase subunit interface; other site 526222003173 dimer interface [polypeptide binding]; other site 526222003174 putative PBP binding regions; other site 526222003175 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 526222003176 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 526222003177 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 526222003178 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 526222003179 intersubunit interface [polypeptide binding]; other site 526222003180 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 526222003181 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 526222003182 RNase E interface [polypeptide binding]; other site 526222003183 trimer interface [polypeptide binding]; other site 526222003184 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 526222003185 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 526222003186 RNase E interface [polypeptide binding]; other site 526222003187 trimer interface [polypeptide binding]; other site 526222003188 active site 526222003189 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 526222003190 putative nucleic acid binding region [nucleotide binding]; other site 526222003191 G-X-X-G motif; other site 526222003192 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 526222003193 RNA binding site [nucleotide binding]; other site 526222003194 domain interface; other site 526222003195 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 526222003196 16S/18S rRNA binding site [nucleotide binding]; other site 526222003197 S13e-L30e interaction site [polypeptide binding]; other site 526222003198 25S rRNA binding site [nucleotide binding]; other site 526222003199 tRNA pseudouridine synthase B; Provisional; Region: PRK14124 526222003200 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 526222003201 RNA binding site [nucleotide binding]; other site 526222003202 active site 526222003203 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 526222003204 DHH family; Region: DHH; pfam01368 526222003205 Ribosome-binding factor A; Region: RBFA; pfam02033 526222003206 Protein of unknown function (DUF503); Region: DUF503; pfam04456 526222003207 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 526222003208 translation initiation factor IF-2; Region: IF-2; TIGR00487 526222003209 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 526222003210 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 526222003211 G1 box; other site 526222003212 putative GEF interaction site [polypeptide binding]; other site 526222003213 GTP/Mg2+ binding site [chemical binding]; other site 526222003214 Switch I region; other site 526222003215 G2 box; other site 526222003216 G3 box; other site 526222003217 Switch II region; other site 526222003218 G4 box; other site 526222003219 G5 box; other site 526222003220 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 526222003221 Translation-initiation factor 2; Region: IF-2; pfam11987 526222003222 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 526222003223 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 526222003224 NusA N-terminal domain; Region: NusA_N; pfam08529 526222003225 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 526222003226 RNA binding site [nucleotide binding]; other site 526222003227 homodimer interface [polypeptide binding]; other site 526222003228 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 526222003229 G-X-X-G motif; other site 526222003230 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 526222003231 G-X-X-G motif; other site 526222003232 ribosome maturation protein RimP; Reviewed; Region: PRK00092 526222003233 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 526222003234 putative oligomer interface [polypeptide binding]; other site 526222003235 putative RNA binding site [nucleotide binding]; other site 526222003236 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 526222003237 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 526222003238 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 526222003239 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 526222003240 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 526222003241 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 526222003242 SAF-like; Region: SAF_2; pfam13144 526222003243 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 526222003244 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 526222003245 Flagellar L-ring protein; Region: FlgH; pfam02107 526222003246 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 526222003247 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 526222003248 Cache domain; Region: Cache_1; pfam02743 526222003249 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 526222003250 dimerization interface [polypeptide binding]; other site 526222003251 PAS domain; Region: PAS_9; pfam13426 526222003252 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222003253 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003254 dimer interface [polypeptide binding]; other site 526222003255 putative CheW interface [polypeptide binding]; other site 526222003256 Rod binding protein; Region: Rod-binding; cl01626 526222003257 FlgN protein; Region: FlgN; pfam05130 526222003258 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 526222003259 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 526222003260 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 526222003261 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 526222003262 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222003263 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222003264 Global regulator protein family; Region: CsrA; pfam02599 526222003265 flagellar assembly protein FliW; Provisional; Region: PRK13285 526222003266 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 526222003267 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 526222003268 ATP-NAD kinase; Region: NAD_kinase; pfam01513 526222003269 Protein of unknown function DUF89; Region: DUF89; cl15397 526222003270 MltA specific insert domain; Region: MltA; smart00925 526222003271 3D domain; Region: 3D; pfam06725 526222003272 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 526222003273 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 526222003274 GatB domain; Region: GatB_Yqey; smart00845 526222003275 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 526222003276 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 526222003277 GTP-binding protein Der; Reviewed; Region: PRK00093 526222003278 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 526222003279 G1 box; other site 526222003280 GTP/Mg2+ binding site [chemical binding]; other site 526222003281 Switch I region; other site 526222003282 G2 box; other site 526222003283 Switch II region; other site 526222003284 G3 box; other site 526222003285 G4 box; other site 526222003286 G5 box; other site 526222003287 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 526222003288 G1 box; other site 526222003289 GTP/Mg2+ binding site [chemical binding]; other site 526222003290 Switch I region; other site 526222003291 G2 box; other site 526222003292 G3 box; other site 526222003293 Switch II region; other site 526222003294 G4 box; other site 526222003295 G5 box; other site 526222003296 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 526222003297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003298 active site 526222003299 phosphorylation site [posttranslational modification] 526222003300 intermolecular recognition site; other site 526222003301 dimerization interface [polypeptide binding]; other site 526222003302 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 526222003303 DNA binding residues [nucleotide binding] 526222003304 dimerization interface [polypeptide binding]; other site 526222003305 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 526222003306 META domain; Region: META; pfam03724 526222003307 META domain; Region: META; pfam03724 526222003308 Sulfatase; Region: Sulfatase; cl17466 526222003309 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 526222003310 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 526222003311 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 526222003312 active site 526222003313 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222003314 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 526222003315 S-adenosylmethionine binding site [chemical binding]; other site 526222003316 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 526222003317 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 526222003318 active site 526222003319 metal-binding site 526222003320 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 526222003321 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 526222003322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222003323 homodimer interface [polypeptide binding]; other site 526222003324 catalytic residue [active] 526222003325 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 526222003326 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 526222003327 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 526222003328 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 526222003329 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 526222003330 homodimer interface [polypeptide binding]; other site 526222003331 metal binding site [ion binding]; metal-binding site 526222003332 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 526222003333 homodimer interface [polypeptide binding]; other site 526222003334 active site 526222003335 putative chemical substrate binding site [chemical binding]; other site 526222003336 metal binding site [ion binding]; metal-binding site 526222003337 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 526222003338 Colicin V production protein; Region: Colicin_V; pfam02674 526222003339 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 526222003340 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222003341 heme-binding residues [chemical binding]; other site 526222003342 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 526222003343 molybdopterin cofactor binding site; other site 526222003344 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 526222003345 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 526222003346 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 526222003347 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 526222003348 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 526222003349 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222003350 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 526222003351 ligand binding site [chemical binding]; other site 526222003352 flexible hinge region; other site 526222003353 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 526222003354 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 526222003355 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 526222003356 anti sigma factor interaction site; other site 526222003357 regulatory phosphorylation site [posttranslational modification]; other site 526222003358 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 526222003359 active site residue [active] 526222003360 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222003361 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 526222003362 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 526222003363 ADP binding site [chemical binding]; other site 526222003364 magnesium binding site [ion binding]; other site 526222003365 putative shikimate binding site; other site 526222003366 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 526222003367 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 526222003368 Tetramer interface [polypeptide binding]; other site 526222003369 active site 526222003370 FMN-binding site [chemical binding]; other site 526222003371 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 526222003372 S-adenosylmethionine binding site [chemical binding]; other site 526222003373 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 526222003374 FeS/SAM binding site; other site 526222003375 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 526222003376 Domain of unknown function DUF77; Region: DUF77; pfam01910 526222003377 hypothetical protein; Provisional; Region: PRK04334 526222003378 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 526222003379 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 526222003380 Ribonuclease P; Region: Ribonuclease_P; pfam00825 526222003381 Haemolytic domain; Region: Haemolytic; pfam01809 526222003382 membrane protein insertase; Provisional; Region: PRK01318 526222003383 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 526222003384 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 526222003385 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 526222003386 G-X-X-G motif; other site 526222003387 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 526222003388 RxxxH motif; other site 526222003389 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 526222003390 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 526222003391 trmE is a tRNA modification GTPase; Region: trmE; cd04164 526222003392 G1 box; other site 526222003393 GTP/Mg2+ binding site [chemical binding]; other site 526222003394 Switch I region; other site 526222003395 G2 box; other site 526222003396 Switch II region; other site 526222003397 G3 box; other site 526222003398 G4 box; other site 526222003399 G5 box; other site 526222003400 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 526222003401 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 526222003402 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 526222003403 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 526222003404 Probable Catalytic site; other site 526222003405 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 526222003406 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 526222003407 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222003408 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 526222003409 S-adenosylmethionine binding site [chemical binding]; other site 526222003410 4-alpha-glucanotransferase; Provisional; Region: PRK14508 526222003411 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 526222003412 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 526222003413 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 526222003414 catalytic site [active] 526222003415 active site 526222003416 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 526222003417 putative acyl-acceptor binding pocket; other site 526222003418 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 526222003419 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 526222003420 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 526222003421 tetramer interface [polypeptide binding]; other site 526222003422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222003423 catalytic residue [active] 526222003424 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 526222003425 active site 526222003426 catalytic triad [active] 526222003427 oxyanion hole [active] 526222003428 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 526222003429 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 526222003430 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 526222003431 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 526222003432 ABC-ATPase subunit interface; other site 526222003433 dimer interface [polypeptide binding]; other site 526222003434 putative PBP binding regions; other site 526222003435 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 526222003436 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 526222003437 active site 526222003438 dimer interface [polypeptide binding]; other site 526222003439 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 526222003440 Ligand Binding Site [chemical binding]; other site 526222003441 Molecular Tunnel; other site 526222003442 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 526222003443 PAS domain; Region: PAS_9; pfam13426 526222003444 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 526222003445 putative active site [active] 526222003446 heme pocket [chemical binding]; other site 526222003447 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222003448 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003449 dimer interface [polypeptide binding]; other site 526222003450 putative CheW interface [polypeptide binding]; other site 526222003451 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 526222003452 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003454 active site 526222003455 phosphorylation site [posttranslational modification] 526222003456 intermolecular recognition site; other site 526222003457 dimerization interface [polypeptide binding]; other site 526222003458 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 526222003459 dimer interface [polypeptide binding]; other site 526222003460 active site 526222003461 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 526222003462 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 526222003463 PAS domain S-box; Region: sensory_box; TIGR00229 526222003464 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 526222003465 putative active site [active] 526222003466 heme pocket [chemical binding]; other site 526222003467 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222003468 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 526222003469 dimer interface [polypeptide binding]; other site 526222003470 phosphorylation site [posttranslational modification] 526222003471 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 526222003472 ATP binding site [chemical binding]; other site 526222003473 Mg2+ binding site [ion binding]; other site 526222003474 G-X-G motif; other site 526222003475 flagellin; Provisional; Region: PRK12802 526222003476 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222003477 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222003478 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 526222003479 isocitrate dehydrogenase; Validated; Region: PRK07362 526222003480 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222003481 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222003482 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222003483 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222003484 Protein export membrane protein; Region: SecD_SecF; cl14618 526222003485 aspartate aminotransferase; Provisional; Region: PRK05764 526222003486 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 526222003487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222003488 homodimer interface [polypeptide binding]; other site 526222003489 catalytic residue [active] 526222003490 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 526222003491 Glutamine amidotransferase class-I; Region: GATase; pfam00117 526222003492 glutamine binding [chemical binding]; other site 526222003493 catalytic triad [active] 526222003494 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 526222003495 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 526222003496 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 526222003497 homodimer interface [polypeptide binding]; other site 526222003498 substrate-cofactor binding pocket; other site 526222003499 Aminotransferase class IV; Region: Aminotran_4; pfam01063 526222003500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222003501 catalytic residue [active] 526222003502 Flagellar protein YcgR; Region: YcgR_2; pfam12945 526222003503 PilZ domain; Region: PilZ; pfam07238 526222003504 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 526222003505 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 526222003506 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 526222003507 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 526222003508 active site 526222003509 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 526222003510 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 526222003511 Ligand Binding Site [chemical binding]; other site 526222003512 TIGR00269 family protein; Region: TIGR00269 526222003513 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003515 active site 526222003516 phosphorylation site [posttranslational modification] 526222003517 intermolecular recognition site; other site 526222003518 dimerization interface [polypeptide binding]; other site 526222003519 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 526222003520 Peptidase family M50; Region: Peptidase_M50; pfam02163 526222003521 active site 526222003522 putative substrate binding region [chemical binding]; other site 526222003523 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 526222003524 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 526222003525 active site 526222003526 HIGH motif; other site 526222003527 dimer interface [polypeptide binding]; other site 526222003528 KMSKS motif; other site 526222003529 Predicted permease; Region: DUF318; cl17795 526222003530 Predicted permease; Region: DUF318; cl17795 526222003531 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 526222003532 dimerization interface [polypeptide binding]; other site 526222003533 putative DNA binding site [nucleotide binding]; other site 526222003534 putative Zn2+ binding site [ion binding]; other site 526222003535 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; cl00086 526222003536 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 526222003537 dimerization interface [polypeptide binding]; other site 526222003538 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222003539 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 526222003540 putative active site [active] 526222003541 heme pocket [chemical binding]; other site 526222003542 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 526222003543 dimer interface [polypeptide binding]; other site 526222003544 phosphorylation site [posttranslational modification] 526222003545 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 526222003546 ATP binding site [chemical binding]; other site 526222003547 Mg2+ binding site [ion binding]; other site 526222003548 G-X-G motif; other site 526222003549 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222003550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003551 active site 526222003552 phosphorylation site [posttranslational modification] 526222003553 intermolecular recognition site; other site 526222003554 dimerization interface [polypeptide binding]; other site 526222003555 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 526222003556 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 526222003557 putative ligand binding site [chemical binding]; other site 526222003558 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222003559 GAF domain; Region: GAF; pfam01590 526222003560 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222003561 Zn2+ binding site [ion binding]; other site 526222003562 Mg2+ binding site [ion binding]; other site 526222003563 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222003564 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003566 active site 526222003567 phosphorylation site [posttranslational modification] 526222003568 intermolecular recognition site; other site 526222003569 dimerization interface [polypeptide binding]; other site 526222003570 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 526222003571 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 526222003572 putative ligand binding site [chemical binding]; other site 526222003573 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222003574 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 526222003575 putative active site [active] 526222003576 heme pocket [chemical binding]; other site 526222003577 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 526222003578 dimer interface [polypeptide binding]; other site 526222003579 phosphorylation site [posttranslational modification] 526222003580 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 526222003581 ATP binding site [chemical binding]; other site 526222003582 Mg2+ binding site [ion binding]; other site 526222003583 G-X-G motif; other site 526222003584 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003586 active site 526222003587 phosphorylation site [posttranslational modification] 526222003588 intermolecular recognition site; other site 526222003589 dimerization interface [polypeptide binding]; other site 526222003590 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 526222003591 anti sigma factor interaction site; other site 526222003592 regulatory phosphorylation site [posttranslational modification]; other site 526222003593 YceG-like family; Region: YceG; pfam02618 526222003594 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 526222003595 dimerization interface [polypeptide binding]; other site 526222003596 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 526222003597 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 526222003598 FAD binding domain; Region: FAD_binding_4; pfam01565 526222003599 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 526222003600 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222003601 Cysteine-rich domain; Region: CCG; pfam02754 526222003602 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 526222003603 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222003604 catalytic residue [active] 526222003605 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222003606 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222003607 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 526222003608 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 526222003609 Sulfate transporter family; Region: Sulfate_transp; pfam00916 526222003610 Sulfate transporter family; Region: Sulfate_transp; pfam00916 526222003611 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 526222003612 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 526222003613 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003615 active site 526222003616 phosphorylation site [posttranslational modification] 526222003617 intermolecular recognition site; other site 526222003618 dimerization interface [polypeptide binding]; other site 526222003619 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 526222003620 dimer interface [polypeptide binding]; other site 526222003621 phosphorylation site [posttranslational modification] 526222003622 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 526222003623 ATP binding site [chemical binding]; other site 526222003624 Mg2+ binding site [ion binding]; other site 526222003625 G-X-G motif; other site 526222003626 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003627 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003628 active site 526222003629 phosphorylation site [posttranslational modification] 526222003630 intermolecular recognition site; other site 526222003631 dimerization interface [polypeptide binding]; other site 526222003632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222003633 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 526222003634 dimer interface [polypeptide binding]; other site 526222003635 phosphorylation site [posttranslational modification] 526222003636 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003638 active site 526222003639 phosphorylation site [posttranslational modification] 526222003640 intermolecular recognition site; other site 526222003641 dimerization interface [polypeptide binding]; other site 526222003642 HAMP domain; Region: HAMP; pfam00672 526222003643 PAS fold; Region: PAS_4; pfam08448 526222003644 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 526222003645 putative active site [active] 526222003646 heme pocket [chemical binding]; other site 526222003647 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222003648 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003649 dimer interface [polypeptide binding]; other site 526222003650 putative CheW interface [polypeptide binding]; other site 526222003651 Archaeal ATPase; Region: Arch_ATPase; pfam01637 526222003652 Acylphosphatase; Region: Acylphosphatase; pfam00708 526222003653 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 526222003654 HypF finger; Region: zf-HYPF; pfam07503 526222003655 HypF finger; Region: zf-HYPF; pfam07503 526222003656 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 526222003657 Uncharacterized conserved protein [Function unknown]; Region: COG2006 526222003658 Domain of unknown function (DUF362); Region: DUF362; pfam04015 526222003659 adenylate kinase; Provisional; Region: PRK13808 526222003660 Predicted permeases [General function prediction only]; Region: COG0730 526222003661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222003662 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 526222003663 Walker A/P-loop; other site 526222003664 ATP binding site [chemical binding]; other site 526222003665 ABC transporter signature motif; other site 526222003666 Walker B; other site 526222003667 D-loop; other site 526222003668 H-loop/switch region; other site 526222003669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222003670 Walker A/P-loop; other site 526222003671 ATP binding site [chemical binding]; other site 526222003672 Q-loop/lid; other site 526222003673 ABC transporter signature motif; other site 526222003674 Walker B; other site 526222003675 D-loop; other site 526222003676 H-loop/switch region; other site 526222003677 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 526222003678 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 526222003679 active site 526222003680 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 526222003681 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 526222003682 ATP binding site [chemical binding]; other site 526222003683 substrate interface [chemical binding]; other site 526222003684 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003686 active site 526222003687 phosphorylation site [posttranslational modification] 526222003688 intermolecular recognition site; other site 526222003689 dimerization interface [polypeptide binding]; other site 526222003690 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 526222003691 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222003692 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 526222003693 substrate binding pocket [chemical binding]; other site 526222003694 membrane-bound complex binding site; other site 526222003695 hinge residues; other site 526222003696 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 526222003697 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 526222003698 Walker A motif/ATP binding site; other site 526222003699 Walker B motif; other site 526222003700 Flagellar assembly protein FliH; Region: FliH; pfam02108 526222003701 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 526222003702 MgtE intracellular N domain; Region: MgtE_N; cl15244 526222003703 FliG C-terminal domain; Region: FliG_C; pfam01706 526222003704 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 526222003705 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 526222003706 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 526222003707 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 526222003708 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 526222003709 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 526222003710 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 526222003711 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 526222003712 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 526222003713 binding surface 526222003714 TPR motif; other site 526222003715 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 526222003716 binding surface 526222003717 TPR motif; other site 526222003718 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 526222003719 purine monophosphate binding site [chemical binding]; other site 526222003720 dimer interface [polypeptide binding]; other site 526222003721 putative catalytic residues [active] 526222003722 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 526222003723 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 526222003724 HflX GTPase family; Region: HflX; cd01878 526222003725 G1 box; other site 526222003726 GTP/Mg2+ binding site [chemical binding]; other site 526222003727 Switch I region; other site 526222003728 G2 box; other site 526222003729 G3 box; other site 526222003730 Switch II region; other site 526222003731 G4 box; other site 526222003732 G5 box; other site 526222003733 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 526222003734 rRNA binding site [nucleotide binding]; other site 526222003735 predicted 30S ribosome binding site; other site 526222003736 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 526222003737 DNA-binding site [nucleotide binding]; DNA binding site 526222003738 RNA-binding motif; other site 526222003739 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 526222003740 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222003741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003742 active site 526222003743 phosphorylation site [posttranslational modification] 526222003744 intermolecular recognition site; other site 526222003745 dimerization interface [polypeptide binding]; other site 526222003746 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003748 active site 526222003749 phosphorylation site [posttranslational modification] 526222003750 intermolecular recognition site; other site 526222003751 dimerization interface [polypeptide binding]; other site 526222003752 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 526222003753 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 526222003754 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 526222003755 dimerization interface [polypeptide binding]; other site 526222003756 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 526222003757 ATP binding site [chemical binding]; other site 526222003758 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 526222003759 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 526222003760 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 526222003761 Cl- selectivity filter; other site 526222003762 Cl- binding residues [ion binding]; other site 526222003763 pore gating glutamate residue; other site 526222003764 dimer interface [polypeptide binding]; other site 526222003765 FOG: CBS domain [General function prediction only]; Region: COG0517 526222003766 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 526222003767 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 526222003768 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222003769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222003770 active site 526222003771 phosphorylation site [posttranslational modification] 526222003772 intermolecular recognition site; other site 526222003773 dimerization interface [polypeptide binding]; other site 526222003774 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 526222003775 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 526222003776 FMN binding site [chemical binding]; other site 526222003777 active site 526222003778 catalytic residues [active] 526222003779 substrate binding site [chemical binding]; other site 526222003780 elongation factor Tu; Reviewed; Region: PRK00049 526222003781 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 526222003782 G1 box; other site 526222003783 GEF interaction site [polypeptide binding]; other site 526222003784 GTP/Mg2+ binding site [chemical binding]; other site 526222003785 Switch I region; other site 526222003786 G2 box; other site 526222003787 G3 box; other site 526222003788 Switch II region; other site 526222003789 G4 box; other site 526222003790 G5 box; other site 526222003791 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 526222003792 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 526222003793 Antibiotic Binding Site [chemical binding]; other site 526222003794 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 526222003795 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 526222003796 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 526222003797 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 526222003798 putative homodimer interface [polypeptide binding]; other site 526222003799 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 526222003800 heterodimer interface [polypeptide binding]; other site 526222003801 homodimer interface [polypeptide binding]; other site 526222003802 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 526222003803 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 526222003804 23S rRNA interface [nucleotide binding]; other site 526222003805 L7/L12 interface [polypeptide binding]; other site 526222003806 putative thiostrepton binding site; other site 526222003807 L25 interface [polypeptide binding]; other site 526222003808 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 526222003809 mRNA/rRNA interface [nucleotide binding]; other site 526222003810 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 526222003811 23S rRNA interface [nucleotide binding]; other site 526222003812 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 526222003813 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 526222003814 core dimer interface [polypeptide binding]; other site 526222003815 peripheral dimer interface [polypeptide binding]; other site 526222003816 L10 interface [polypeptide binding]; other site 526222003817 L11 interface [polypeptide binding]; other site 526222003818 putative EF-Tu interaction site [polypeptide binding]; other site 526222003819 putative EF-G interaction site [polypeptide binding]; other site 526222003820 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 526222003821 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 526222003822 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 526222003823 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 526222003824 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 526222003825 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 526222003826 RPB3 interaction site [polypeptide binding]; other site 526222003827 RPB1 interaction site [polypeptide binding]; other site 526222003828 RPB11 interaction site [polypeptide binding]; other site 526222003829 RPB10 interaction site [polypeptide binding]; other site 526222003830 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 526222003831 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 526222003832 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 526222003833 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 526222003834 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 526222003835 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 526222003836 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 526222003837 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 526222003838 DNA binding site [nucleotide binding] 526222003839 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 526222003840 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 526222003841 S17 interaction site [polypeptide binding]; other site 526222003842 S8 interaction site; other site 526222003843 16S rRNA interaction site [nucleotide binding]; other site 526222003844 streptomycin interaction site [chemical binding]; other site 526222003845 23S rRNA interaction site [nucleotide binding]; other site 526222003846 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 526222003847 30S ribosomal protein S7; Validated; Region: PRK05302 526222003848 elongation factor G; Reviewed; Region: PRK00007 526222003849 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 526222003850 G1 box; other site 526222003851 putative GEF interaction site [polypeptide binding]; other site 526222003852 GTP/Mg2+ binding site [chemical binding]; other site 526222003853 Switch I region; other site 526222003854 G2 box; other site 526222003855 G3 box; other site 526222003856 Switch II region; other site 526222003857 G4 box; other site 526222003858 G5 box; other site 526222003859 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 526222003860 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 526222003861 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 526222003862 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 526222003863 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 526222003864 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 526222003865 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 526222003866 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 526222003867 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 526222003868 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 526222003869 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 526222003870 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 526222003871 putative translocon binding site; other site 526222003872 protein-rRNA interface [nucleotide binding]; other site 526222003873 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 526222003874 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 526222003875 G-X-X-G motif; other site 526222003876 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 526222003877 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 526222003878 23S rRNA interface [nucleotide binding]; other site 526222003879 5S rRNA interface [nucleotide binding]; other site 526222003880 putative antibiotic binding site [chemical binding]; other site 526222003881 L25 interface [polypeptide binding]; other site 526222003882 L27 interface [polypeptide binding]; other site 526222003883 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 526222003884 23S rRNA interface [nucleotide binding]; other site 526222003885 putative translocon interaction site; other site 526222003886 signal recognition particle (SRP54) interaction site; other site 526222003887 L23 interface [polypeptide binding]; other site 526222003888 trigger factor interaction site; other site 526222003889 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 526222003890 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 526222003891 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 526222003892 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 526222003893 RNA binding site [nucleotide binding]; other site 526222003894 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 526222003895 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 526222003896 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 526222003897 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 526222003898 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 526222003899 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 526222003900 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 526222003901 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 526222003902 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 526222003903 5S rRNA interface [nucleotide binding]; other site 526222003904 L27 interface [polypeptide binding]; other site 526222003905 23S rRNA interface [nucleotide binding]; other site 526222003906 L5 interface [polypeptide binding]; other site 526222003907 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 526222003908 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 526222003909 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 526222003910 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 526222003911 23S rRNA binding site [nucleotide binding]; other site 526222003912 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 526222003913 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 526222003914 SecY translocase; Region: SecY; pfam00344 526222003915 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 526222003916 active site 526222003917 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 526222003918 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 526222003919 30S ribosomal protein S13; Region: bact_S13; TIGR03631 526222003920 30S ribosomal protein S11; Validated; Region: PRK05309 526222003921 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 526222003922 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 526222003923 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 526222003924 RNA binding surface [nucleotide binding]; other site 526222003925 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 526222003926 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 526222003927 alphaNTD - beta interaction site [polypeptide binding]; other site 526222003928 alphaNTD homodimer interface [polypeptide binding]; other site 526222003929 alphaNTD - beta' interaction site [polypeptide binding]; other site 526222003930 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 526222003931 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 526222003932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222003933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222003934 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 526222003935 putative dimerization interface [polypeptide binding]; other site 526222003936 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 526222003937 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 526222003938 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 526222003939 FeS/SAM binding site; other site 526222003940 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 526222003941 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 526222003942 FeS/SAM binding site; other site 526222003943 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 526222003944 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 526222003945 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 526222003946 EamA-like transporter family; Region: EamA; pfam00892 526222003947 EamA-like transporter family; Region: EamA; pfam00892 526222003948 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 526222003949 hypothetical protein; Provisional; Region: PRK05255 526222003950 EamA-like transporter family; Region: EamA; pfam00892 526222003951 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222003952 EamA-like transporter family; Region: EamA; pfam00892 526222003953 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 526222003954 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 526222003955 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 526222003956 putative DNA binding site [nucleotide binding]; other site 526222003957 putative Zn2+ binding site [ion binding]; other site 526222003958 AsnC family; Region: AsnC_trans_reg; pfam01037 526222003959 Proline dehydrogenase; Region: Pro_dh; cl03282 526222003960 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 526222003961 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 526222003962 Glutamate binding site [chemical binding]; other site 526222003963 homodimer interface [polypeptide binding]; other site 526222003964 NAD binding site [chemical binding]; other site 526222003965 catalytic residues [active] 526222003966 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222003967 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003968 dimer interface [polypeptide binding]; other site 526222003969 putative CheW interface [polypeptide binding]; other site 526222003970 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 526222003971 anti sigma factor interaction site; other site 526222003972 regulatory phosphorylation site [posttranslational modification]; other site 526222003973 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 526222003974 Permease; Region: Permease; pfam02405 526222003975 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 526222003976 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 526222003977 Walker A/P-loop; other site 526222003978 ATP binding site [chemical binding]; other site 526222003979 Q-loop/lid; other site 526222003980 ABC transporter signature motif; other site 526222003981 Walker B; other site 526222003982 D-loop; other site 526222003983 H-loop/switch region; other site 526222003984 mce related protein; Region: MCE; pfam02470 526222003985 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 526222003986 PAS domain; Region: PAS_9; pfam13426 526222003987 putative active site [active] 526222003988 heme pocket [chemical binding]; other site 526222003989 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222003990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222003991 metal binding site [ion binding]; metal-binding site 526222003992 active site 526222003993 I-site; other site 526222003994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 526222003995 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 526222003996 binding surface 526222003997 TPR motif; other site 526222003998 TPR repeat; Region: TPR_11; pfam13414 526222003999 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 526222004000 TPR motif; other site 526222004001 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222004002 binding surface 526222004003 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222004004 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 526222004005 ligand binding site [chemical binding]; other site 526222004006 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 526222004007 TPR repeat; Region: TPR_11; pfam13414 526222004008 TPR motif; other site 526222004009 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 526222004010 TPR motif; other site 526222004011 binding surface 526222004012 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222004013 reticulocyte binding/rhoptry protein; Region: 235kDa-fam; TIGR01612 526222004014 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 526222004015 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 526222004016 membrane-bound complex binding site; other site 526222004017 hinge residues; other site 526222004018 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 526222004019 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 526222004020 substrate binding site [chemical binding]; other site 526222004021 hexamer interface [polypeptide binding]; other site 526222004022 metal binding site [ion binding]; metal-binding site 526222004023 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 526222004024 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 526222004025 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 526222004026 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 526222004027 FeS/SAM binding site; other site 526222004028 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 526222004029 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; cd00384 526222004030 dimer interface [polypeptide binding]; other site 526222004031 active site 526222004032 Schiff base residues; other site 526222004033 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 526222004034 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 526222004035 FeS/SAM binding site; other site 526222004036 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 526222004037 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 526222004038 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222004039 ligand binding site [chemical binding]; other site 526222004040 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 526222004041 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG2881 526222004042 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 526222004043 active site 526222004044 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 526222004045 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222004046 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 526222004047 flagellar capping protein; Provisional; Region: PRK12765 526222004048 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 526222004049 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 526222004050 flagellin; Provisional; Region: PRK12802 526222004051 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222004052 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222004053 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 526222004054 RIP metalloprotease RseP; Region: TIGR00054 526222004055 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 526222004056 active site 526222004057 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 526222004058 protein binding site [polypeptide binding]; other site 526222004059 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 526222004060 putative substrate binding region [chemical binding]; other site 526222004061 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 526222004062 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 526222004063 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 526222004064 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 526222004065 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 526222004066 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 526222004067 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222004068 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 526222004069 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222004070 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222004071 Bacterial SH3 domain; Region: SH3_3; pfam08239 526222004072 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 526222004073 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 526222004074 catalytic residue [active] 526222004075 putative FPP diphosphate binding site; other site 526222004076 putative FPP binding hydrophobic cleft; other site 526222004077 dimer interface [polypeptide binding]; other site 526222004078 putative IPP diphosphate binding site; other site 526222004079 ribosome recycling factor; Reviewed; Region: frr; PRK00083 526222004080 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 526222004081 hinge region; other site 526222004082 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 526222004083 putative nucleotide binding site [chemical binding]; other site 526222004084 uridine monophosphate binding site [chemical binding]; other site 526222004085 homohexameric interface [polypeptide binding]; other site 526222004086 elongation factor Ts; Reviewed; Region: tsf; PRK12332 526222004087 UBA/TS-N domain; Region: UBA; pfam00627 526222004088 Elongation factor TS; Region: EF_TS; pfam00889 526222004089 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 526222004090 rRNA interaction site [nucleotide binding]; other site 526222004091 S8 interaction site; other site 526222004092 putative laminin-1 binding site; other site 526222004093 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 526222004094 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 526222004095 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 526222004096 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 526222004097 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 526222004098 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 526222004099 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 526222004100 putative acyl-acceptor binding pocket; other site 526222004101 Hemerythrin; Region: Hemerythrin; cd12107 526222004102 Fe binding site [ion binding]; other site 526222004103 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 526222004104 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 526222004105 dimer interface [polypeptide binding]; other site 526222004106 active site 526222004107 heme binding site [chemical binding]; other site 526222004108 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 526222004109 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 526222004110 elongation factor G; Reviewed; Region: PRK12740 526222004111 G1 box; other site 526222004112 putative GEF interaction site [polypeptide binding]; other site 526222004113 GTP/Mg2+ binding site [chemical binding]; other site 526222004114 Switch I region; other site 526222004115 G2 box; other site 526222004116 G3 box; other site 526222004117 Switch II region; other site 526222004118 G4 box; other site 526222004119 G5 box; other site 526222004120 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 526222004121 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 526222004122 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 526222004123 ParB-like nuclease domain; Region: ParBc; cl02129 526222004124 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222004125 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 526222004126 Short C-terminal domain; Region: SHOCT; pfam09851 526222004127 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 526222004128 S-adenosylmethionine synthetase; Validated; Region: PRK05250 526222004129 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 526222004130 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 526222004131 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 526222004132 pantoate--beta-alanine ligase; Region: panC; TIGR00018 526222004133 Pantoate-beta-alanine ligase; Region: PanC; cd00560 526222004134 active site 526222004135 ATP-binding site [chemical binding]; other site 526222004136 pantoate-binding site; other site 526222004137 HXXH motif; other site 526222004138 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 526222004139 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 526222004140 putative DNA binding site [nucleotide binding]; other site 526222004141 putative Zn2+ binding site [ion binding]; other site 526222004142 AsnC family; Region: AsnC_trans_reg; pfam01037 526222004143 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 526222004144 HAMP domain; Region: HAMP; pfam00672 526222004145 PAS fold; Region: PAS_4; pfam08448 526222004146 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222004147 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222004148 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222004149 dimer interface [polypeptide binding]; other site 526222004150 putative CheW interface [polypeptide binding]; other site 526222004151 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222004152 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004153 metal binding site [ion binding]; metal-binding site 526222004154 active site 526222004155 I-site; other site 526222004156 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 526222004157 TPR motif; other site 526222004158 TPR repeat; Region: TPR_11; pfam13414 526222004159 binding surface 526222004160 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 526222004161 binding surface 526222004162 TPR motif; other site 526222004163 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 526222004164 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 526222004165 N-acetyl-D-glucosamine binding site [chemical binding]; other site 526222004166 catalytic residue [active] 526222004167 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 526222004168 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 526222004169 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 526222004170 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 526222004171 binding surface 526222004172 TPR motif; other site 526222004173 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 526222004174 CheW-like domain; Region: CheW; pfam01584 526222004175 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 526222004176 putative binding surface; other site 526222004177 active site 526222004178 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 526222004179 ATP binding site [chemical binding]; other site 526222004180 Mg2+ binding site [ion binding]; other site 526222004181 G-X-G motif; other site 526222004182 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 526222004183 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222004184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004185 active site 526222004186 phosphorylation site [posttranslational modification] 526222004187 intermolecular recognition site; other site 526222004188 dimerization interface [polypeptide binding]; other site 526222004189 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 526222004190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004191 active site 526222004192 phosphorylation site [posttranslational modification] 526222004193 intermolecular recognition site; other site 526222004194 dimerization interface [polypeptide binding]; other site 526222004195 CheB methylesterase; Region: CheB_methylest; pfam01339 526222004196 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004198 active site 526222004199 phosphorylation site [posttranslational modification] 526222004200 intermolecular recognition site; other site 526222004201 dimerization interface [polypeptide binding]; other site 526222004202 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222004203 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 526222004204 dimer interface [polypeptide binding]; other site 526222004205 phosphorylation site [posttranslational modification] 526222004206 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 526222004207 ATP binding site [chemical binding]; other site 526222004208 Mg2+ binding site [ion binding]; other site 526222004209 G-X-G motif; other site 526222004210 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004211 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004212 active site 526222004213 phosphorylation site [posttranslational modification] 526222004214 intermolecular recognition site; other site 526222004215 dimerization interface [polypeptide binding]; other site 526222004216 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; cl00086 526222004217 phosphoglucomutase; Validated; Region: PRK07564 526222004218 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 526222004219 active site 526222004220 substrate binding site [chemical binding]; other site 526222004221 metal binding site [ion binding]; metal-binding site 526222004222 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 526222004223 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 526222004224 binding surface 526222004225 TPR motif; other site 526222004226 TPR repeat; Region: TPR_11; pfam13414 526222004227 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 526222004228 binding surface 526222004229 TPR motif; other site 526222004230 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222004231 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222004232 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 526222004233 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 526222004234 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 526222004235 putative transporter; Provisional; Region: PRK11021 526222004236 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222004237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222004238 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 526222004239 dimerization interface [polypeptide binding]; other site 526222004240 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 526222004241 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 526222004242 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 526222004243 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 526222004244 dimer interface [polypeptide binding]; other site 526222004245 active site 526222004246 glycine-pyridoxal phosphate binding site [chemical binding]; other site 526222004247 folate binding site [chemical binding]; other site 526222004248 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 526222004249 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 526222004250 active site 526222004251 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 526222004252 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 526222004253 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004254 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 526222004255 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 526222004256 substrate binding site [chemical binding]; other site 526222004257 glutamase interaction surface [polypeptide binding]; other site 526222004258 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 526222004259 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 526222004260 putative active site [active] 526222004261 oxyanion strand; other site 526222004262 catalytic triad [active] 526222004263 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 526222004264 HSP70 interaction site [polypeptide binding]; other site 526222004265 Flagellin N-methylase; Region: FliB; pfam03692 526222004266 CoA binding domain; Region: CoA_binding_2; pfam13380 526222004267 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 526222004268 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 526222004269 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 526222004270 active site 526222004271 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 526222004272 dimer interface [polypeptide binding]; other site 526222004273 FMN binding site [chemical binding]; other site 526222004274 AMIN domain; Region: AMIN; pfam11741 526222004275 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 526222004276 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 526222004277 putative active site [active] 526222004278 metal binding site [ion binding]; metal-binding site 526222004279 Predicted kinase [General function prediction only]; Region: COG0645 526222004280 AAA domain; Region: AAA_17; pfam13207 526222004281 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 526222004282 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 526222004283 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 526222004284 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 526222004285 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222004286 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 526222004287 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 526222004288 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 526222004289 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 526222004290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222004291 dimer interface [polypeptide binding]; other site 526222004292 conserved gate region; other site 526222004293 putative PBP binding loops; other site 526222004294 ABC-ATPase subunit interface; other site 526222004295 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 526222004296 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222004297 dimer interface [polypeptide binding]; other site 526222004298 conserved gate region; other site 526222004299 putative PBP binding loops; other site 526222004300 ABC-ATPase subunit interface; other site 526222004301 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 526222004302 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 526222004303 Walker A/P-loop; other site 526222004304 ATP binding site [chemical binding]; other site 526222004305 Q-loop/lid; other site 526222004306 ABC transporter signature motif; other site 526222004307 Walker B; other site 526222004308 D-loop; other site 526222004309 H-loop/switch region; other site 526222004310 TOBE domain; Region: TOBE_2; pfam08402 526222004311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222004312 Coenzyme A binding pocket [chemical binding]; other site 526222004313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004314 active site 526222004315 dimerization interface [polypeptide binding]; other site 526222004316 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222004317 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 526222004318 ATP binding site [chemical binding]; other site 526222004319 Walker B motif; other site 526222004320 arginine finger; other site 526222004321 4Fe-4S binding domain; Region: Fer4; cl02805 526222004322 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 526222004323 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 526222004324 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 526222004325 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 526222004326 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 526222004327 FeS/SAM binding site; other site 526222004328 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 526222004329 aspartate ammonia-lyase; Provisional; Region: PRK13353 526222004330 Aspartase; Region: Aspartase; cd01357 526222004331 active sites [active] 526222004332 tetramer interface [polypeptide binding]; other site 526222004333 biotin synthase; Provisional; Region: PRK07094 526222004334 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 526222004335 FeS/SAM binding site; other site 526222004336 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 526222004337 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 526222004338 G1 box; other site 526222004339 GTP/Mg2+ binding site [chemical binding]; other site 526222004340 Switch I region; other site 526222004341 G2 box; other site 526222004342 Switch II region; other site 526222004343 G3 box; other site 526222004344 G4 box; other site 526222004345 G5 box; other site 526222004346 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222004347 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222004348 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222004349 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 526222004350 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222004351 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 526222004352 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 526222004353 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 526222004354 putative tRNA-binding site [nucleotide binding]; other site 526222004355 B3/4 domain; Region: B3_4; pfam03483 526222004356 tRNA synthetase B5 domain; Region: B5; smart00874 526222004357 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 526222004358 dimer interface [polypeptide binding]; other site 526222004359 motif 1; other site 526222004360 motif 3; other site 526222004361 motif 2; other site 526222004362 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 526222004363 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 526222004364 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 526222004365 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 526222004366 dimer interface [polypeptide binding]; other site 526222004367 motif 1; other site 526222004368 active site 526222004369 motif 2; other site 526222004370 motif 3; other site 526222004371 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 526222004372 23S rRNA binding site [nucleotide binding]; other site 526222004373 L21 binding site [polypeptide binding]; other site 526222004374 L13 binding site [polypeptide binding]; other site 526222004375 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 526222004376 translation initiation factor IF-3; Region: infC; TIGR00168 526222004377 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 526222004378 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 526222004379 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 526222004380 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 526222004381 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 526222004382 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 526222004383 active site 526222004384 dimer interface [polypeptide binding]; other site 526222004385 motif 1; other site 526222004386 motif 2; other site 526222004387 motif 3; other site 526222004388 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 526222004389 anticodon binding site; other site 526222004390 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 526222004391 Sulfatase; Region: Sulfatase; pfam00884 526222004392 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 526222004393 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 526222004394 FeS/SAM binding site; other site 526222004395 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 526222004396 SEC-C motif; Region: SEC-C; pfam02810 526222004397 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 526222004398 active site 526222004399 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 526222004400 active site 2 [active] 526222004401 active site 1 [active] 526222004402 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 526222004403 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 526222004404 Active site cavity [active] 526222004405 catalytic acid [active] 526222004406 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222004407 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222004408 WHG domain; Region: WHG; pfam13305 526222004409 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 526222004410 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 526222004411 active site 526222004412 NTP binding site [chemical binding]; other site 526222004413 nucleic acid binding site [nucleotide binding]; other site 526222004414 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 526222004415 substrate binding pocket [chemical binding]; other site 526222004416 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004417 membrane-bound complex binding site; other site 526222004418 hinge residues; other site 526222004419 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 526222004420 Sulfatase; Region: Sulfatase; pfam00884 526222004421 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 526222004422 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 526222004423 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 526222004424 ligand binding site [chemical binding]; other site 526222004425 flexible hinge region; other site 526222004426 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 526222004427 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 526222004428 catalytic residues [active] 526222004429 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 526222004430 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222004431 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222004432 CHASE4 domain; Region: CHASE4; pfam05228 526222004433 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222004434 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004435 metal binding site [ion binding]; metal-binding site 526222004436 active site 526222004437 I-site; other site 526222004438 Predicted membrane protein [Function unknown]; Region: COG2860 526222004439 UPF0126 domain; Region: UPF0126; pfam03458 526222004440 UPF0126 domain; Region: UPF0126; pfam03458 526222004441 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 526222004442 dimerization interface [polypeptide binding]; other site 526222004443 PAS fold; Region: PAS_4; pfam08448 526222004444 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 526222004445 putative active site [active] 526222004446 heme pocket [chemical binding]; other site 526222004447 PAS domain S-box; Region: sensory_box; TIGR00229 526222004448 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 526222004449 putative active site [active] 526222004450 heme pocket [chemical binding]; other site 526222004451 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 526222004452 dimer interface [polypeptide binding]; other site 526222004453 phosphorylation site [posttranslational modification] 526222004454 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 526222004455 ATP binding site [chemical binding]; other site 526222004456 Mg2+ binding site [ion binding]; other site 526222004457 G-X-G motif; other site 526222004458 Transcriptional regulator; Region: Rrf2; cl17282 526222004459 Rrf2 family protein; Region: rrf2_super; TIGR00738 526222004460 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004462 active site 526222004463 phosphorylation site [posttranslational modification] 526222004464 intermolecular recognition site; other site 526222004465 dimerization interface [polypeptide binding]; other site 526222004466 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222004467 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 526222004468 ATP binding site [chemical binding]; other site 526222004469 Mg2+ binding site [ion binding]; other site 526222004470 G-X-G motif; other site 526222004471 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004473 active site 526222004474 phosphorylation site [posttranslational modification] 526222004475 intermolecular recognition site; other site 526222004476 dimerization interface [polypeptide binding]; other site 526222004477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004478 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004479 active site 526222004480 phosphorylation site [posttranslational modification] 526222004481 intermolecular recognition site; other site 526222004482 dimerization interface [polypeptide binding]; other site 526222004483 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 526222004484 Ligand Binding Site [chemical binding]; other site 526222004485 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 526222004486 Ligand Binding Site [chemical binding]; other site 526222004487 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222004488 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 526222004489 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 526222004490 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 526222004491 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 526222004492 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004493 heme-binding residues [chemical binding]; other site 526222004494 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004495 heme-binding residues [chemical binding]; other site 526222004496 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004497 heme-binding residues [chemical binding]; other site 526222004498 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004499 heme-binding residues [chemical binding]; other site 526222004500 Predicted membrane protein [Function unknown]; Region: COG3152 526222004501 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 526222004502 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 526222004503 RmuC family; Region: RmuC; pfam02646 526222004504 potential frameshift: common BLAST hit: gi|121612148|ref|YP_999752.1| cytochrome c family protein 526222004505 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 526222004506 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 526222004507 heme-binding residues [chemical binding]; other site 526222004508 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 526222004509 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 526222004510 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 526222004511 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004512 heme-binding residues [chemical binding]; other site 526222004513 Transcriptional regulators [Transcription]; Region: GntR; COG1802 526222004514 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222004515 DNA-binding site [nucleotide binding]; DNA binding site 526222004516 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 526222004517 DctM-like transporters; Region: DctM; pfam06808 526222004518 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 526222004519 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 526222004520 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 526222004521 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 526222004522 D-cysteine desulfhydrase; Validated; Region: PRK03910 526222004523 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 526222004524 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222004525 catalytic residue [active] 526222004526 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 526222004527 homotrimer interaction site [polypeptide binding]; other site 526222004528 putative active site [active] 526222004529 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 526222004530 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 526222004531 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004532 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 526222004533 substrate binding pocket [chemical binding]; other site 526222004534 membrane-bound complex binding site; other site 526222004535 hinge residues; other site 526222004536 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 526222004537 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 526222004538 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 526222004539 active site 526222004540 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 526222004541 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 526222004542 homodimer interface [polypeptide binding]; other site 526222004543 substrate-cofactor binding pocket; other site 526222004544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222004545 catalytic residue [active] 526222004546 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 526222004547 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 526222004548 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222004549 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 526222004550 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 526222004551 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 526222004552 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222004553 putative substrate translocation pore; other site 526222004554 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 526222004555 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 526222004556 CoA binding domain; Region: CoA_binding_2; pfam13380 526222004557 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 526222004558 putative protease; Region: PHA00666 526222004559 major capsid protein; Region: PHA00665 526222004560 Endonuclease I; Region: Endonuclease_1; pfam04231 526222004561 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 526222004562 DEAD-like helicases superfamily; Region: DEXDc; smart00487 526222004563 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 526222004564 ATP binding site [chemical binding]; other site 526222004565 putative Mg++ binding site [ion binding]; other site 526222004566 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 526222004567 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 526222004568 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 526222004569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222004570 AAA domain; Region: AAA_21; pfam13304 526222004571 Walker A/P-loop; other site 526222004572 ATP binding site [chemical binding]; other site 526222004573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222004574 Walker B; other site 526222004575 D-loop; other site 526222004576 H-loop/switch region; other site 526222004577 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222004578 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 526222004579 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222004580 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 526222004581 Methyltransferase domain; Region: Methyltransf_26; pfam13659 526222004582 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 526222004583 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 526222004584 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 526222004585 non-specific DNA binding site [nucleotide binding]; other site 526222004586 salt bridge; other site 526222004587 sequence-specific DNA binding site [nucleotide binding]; other site 526222004588 multiple promoter invertase; Provisional; Region: mpi; PRK13413 526222004589 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 526222004590 catalytic residues [active] 526222004591 catalytic nucleophile [active] 526222004592 Presynaptic Site I dimer interface [polypeptide binding]; other site 526222004593 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 526222004594 Synaptic Flat tetramer interface [polypeptide binding]; other site 526222004595 Synaptic Site I dimer interface [polypeptide binding]; other site 526222004596 DNA binding site [nucleotide binding] 526222004597 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 526222004598 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 526222004599 active site 526222004600 catalytic residues [active] 526222004601 DNA binding site [nucleotide binding] 526222004602 Int/Topo IB signature motif; other site 526222004603 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 526222004604 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 526222004605 non-specific DNA binding site [nucleotide binding]; other site 526222004606 salt bridge; other site 526222004607 sequence-specific DNA binding site [nucleotide binding]; other site 526222004608 major capsid protein; Region: PHA00665 526222004609 hypothetical protein; Region: PHA00664 526222004610 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 526222004611 Ligand Binding Site [chemical binding]; other site 526222004612 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 526222004613 Ligand Binding Site [chemical binding]; other site 526222004614 Predicted membrane protein [Function unknown]; Region: COG3431 526222004615 PAS domain S-box; Region: sensory_box; TIGR00229 526222004616 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 526222004617 putative active site [active] 526222004618 heme pocket [chemical binding]; other site 526222004619 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222004620 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 526222004621 dimer interface [polypeptide binding]; other site 526222004622 phosphorylation site [posttranslational modification] 526222004623 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 526222004624 ATP binding site [chemical binding]; other site 526222004625 Mg2+ binding site [ion binding]; other site 526222004626 G-X-G motif; other site 526222004627 hypothetical protein; Region: PHA00662 526222004628 hypothetical protein; Region: PHA00661 526222004629 hypothetical protein; Region: PHA01733 526222004630 hypothetical protein; Provisional; Region: PHA02515 526222004631 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 526222004632 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 526222004633 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 526222004634 substrate-cofactor binding pocket; other site 526222004635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222004636 catalytic residue [active] 526222004637 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 526222004638 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 526222004639 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 526222004640 S-adenosylmethionine binding site [chemical binding]; other site 526222004641 FOG: CBS domain [General function prediction only]; Region: COG0517 526222004642 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 526222004643 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 526222004644 seryl-tRNA synthetase; Provisional; Region: PRK05431 526222004645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004646 active site 526222004647 phosphorylation site [posttranslational modification] 526222004648 intermolecular recognition site; other site 526222004649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222004650 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 526222004651 dimer interface [polypeptide binding]; other site 526222004652 phosphorylation site [posttranslational modification] 526222004653 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 526222004654 ATP binding site [chemical binding]; other site 526222004655 Mg2+ binding site [ion binding]; other site 526222004656 G-X-G motif; other site 526222004657 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222004658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004659 active site 526222004660 phosphorylation site [posttranslational modification] 526222004661 intermolecular recognition site; other site 526222004662 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 526222004663 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222004664 Zn2+ binding site [ion binding]; other site 526222004665 Mg2+ binding site [ion binding]; other site 526222004666 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 526222004667 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 526222004668 RNB domain; Region: RNB; pfam00773 526222004669 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 526222004670 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 526222004671 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 526222004672 N-acetyl-D-glucosamine binding site [chemical binding]; other site 526222004673 catalytic residue [active] 526222004674 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 526222004675 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 526222004676 GDP-binding site [chemical binding]; other site 526222004677 ACT binding site; other site 526222004678 IMP binding site; other site 526222004679 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 526222004680 DNA polymerase III subunit delta'; Validated; Region: PRK08485 526222004681 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 526222004682 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222004683 Coenzyme A binding pocket [chemical binding]; other site 526222004684 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 526222004685 Domain present in PSD-95, Dlg, and ZO-1/2; Region: PDZ; smart00228 526222004686 protein binding site [polypeptide binding]; other site 526222004687 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 526222004688 Active site serine [active] 526222004689 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004690 conserved hypothetical protein; Region: TIGR02285 526222004691 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 526222004692 active site 526222004693 substrate binding site [chemical binding]; other site 526222004694 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 526222004695 FMN binding site [chemical binding]; other site 526222004696 putative catalytic residues [active] 526222004697 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 526222004698 Transcriptional regulators [Transcription]; Region: FadR; COG2186 526222004699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222004700 DNA-binding site [nucleotide binding]; DNA binding site 526222004701 FCD domain; Region: FCD; pfam07729 526222004702 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; 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:quinone...; Region: QFR_TypeB_TM; cd00581 526222004703 Iron-sulfur protein interface; other site 526222004704 proximal heme binding site [chemical binding]; other site 526222004705 distal heme binding site [chemical binding]; other site 526222004706 dimer interface [polypeptide binding]; other site 526222004707 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 526222004708 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 526222004709 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 526222004710 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 526222004711 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 526222004712 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 526222004713 hypothetical protein; Provisional; Region: PRK11568 526222004714 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 526222004715 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 526222004716 PAS fold; Region: PAS_4; pfam08448 526222004717 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 526222004718 putative active site [active] 526222004719 heme pocket [chemical binding]; other site 526222004720 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222004721 GAF domain; Region: GAF; cl17456 526222004722 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 526222004723 dimer interface [polypeptide binding]; other site 526222004724 phosphorylation site [posttranslational modification] 526222004725 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 526222004726 ATP binding site [chemical binding]; other site 526222004727 Mg2+ binding site [ion binding]; other site 526222004728 G-X-G motif; other site 526222004729 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004731 active site 526222004732 phosphorylation site [posttranslational modification] 526222004733 intermolecular recognition site; other site 526222004734 dimerization interface [polypeptide binding]; other site 526222004735 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 526222004736 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 526222004737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222004738 homodimer interface [polypeptide binding]; other site 526222004739 catalytic residue [active] 526222004740 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222004741 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222004742 dimer interface [polypeptide binding]; other site 526222004743 putative CheW interface [polypeptide binding]; other site 526222004744 Hemerythrin; Region: Hemerythrin; cd12107 526222004745 Fe binding site [ion binding]; other site 526222004746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222004747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222004748 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 526222004749 substrate binding pocket [chemical binding]; other site 526222004750 dimerization interface [polypeptide binding]; other site 526222004751 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 526222004752 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004753 substrate binding pocket [chemical binding]; other site 526222004754 membrane-bound complex binding site; other site 526222004755 hinge residues; other site 526222004756 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 526222004757 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 526222004758 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 526222004759 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 526222004760 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 526222004761 PAS domain; Region: PAS_9; pfam13426 526222004762 putative active site [active] 526222004763 heme pocket [chemical binding]; other site 526222004764 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 526222004765 GAF domain; Region: GAF_2; pfam13185 526222004766 PAS domain S-box; Region: sensory_box; TIGR00229 526222004767 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 526222004768 putative active site [active] 526222004769 heme pocket [chemical binding]; other site 526222004770 PAS domain S-box; Region: sensory_box; TIGR00229 526222004771 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 526222004772 putative active site [active] 526222004773 heme pocket [chemical binding]; other site 526222004774 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222004775 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004776 metal binding site [ion binding]; metal-binding site 526222004777 active site 526222004778 I-site; other site 526222004779 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 526222004780 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 526222004781 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 526222004782 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 526222004783 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 526222004784 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 526222004785 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222004786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222004787 Cupin domain; Region: Cupin_2; pfam07883 526222004788 OsmC-like protein; Region: OsmC; pfam02566 526222004789 Flagellin N-methylase; Region: FliB; pfam03692 526222004790 Predicted membrane protein [Function unknown]; Region: COG2246 526222004791 GtrA-like protein; Region: GtrA; pfam04138 526222004792 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004794 active site 526222004795 phosphorylation site [posttranslational modification] 526222004796 intermolecular recognition site; other site 526222004797 dimerization interface [polypeptide binding]; other site 526222004798 PAS domain S-box; Region: sensory_box; TIGR00229 526222004799 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 526222004800 putative active site [active] 526222004801 heme pocket [chemical binding]; other site 526222004802 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222004803 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004804 metal binding site [ion binding]; metal-binding site 526222004805 active site 526222004806 I-site; other site 526222004807 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 526222004808 NADH dehydrogenase subunit B; Validated; Region: PRK06411 526222004809 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 526222004810 NADH dehydrogenase subunit D; Validated; Region: PRK06075 526222004811 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 526222004812 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 526222004813 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 526222004814 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 526222004815 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 526222004816 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 526222004817 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 526222004818 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 526222004819 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 526222004820 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 526222004821 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 526222004822 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 526222004823 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 526222004824 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 526222004825 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 526222004826 ferrous iron transporter FeoB; Region: feoB; TIGR00437 526222004827 G1 box; other site 526222004828 GTP/Mg2+ binding site [chemical binding]; other site 526222004829 Switch I region; other site 526222004830 G2 box; other site 526222004831 G3 box; other site 526222004832 Switch II region; other site 526222004833 G4 box; other site 526222004834 G5 box; other site 526222004835 Nucleoside recognition; Region: Gate; pfam07670 526222004836 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 526222004837 FeoA domain; Region: FeoA; pfam04023 526222004838 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 526222004839 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 526222004840 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 526222004841 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 526222004842 trimer interface [polypeptide binding]; other site 526222004843 CoA binding site [chemical binding]; other site 526222004844 active site 526222004845 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 526222004846 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 526222004847 Na binding site [ion binding]; other site 526222004848 glutamate dehydrogenase; Provisional; Region: PRK09414 526222004849 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 526222004850 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 526222004851 NAD(P) binding site [chemical binding]; other site 526222004852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004853 intermolecular recognition site; other site 526222004854 active site 526222004855 dimerization interface [polypeptide binding]; other site 526222004856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222004857 active site 526222004858 phosphorylation site [posttranslational modification] 526222004859 intermolecular recognition site; other site 526222004860 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222004861 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 526222004862 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 526222004863 anti sigma factor interaction site; other site 526222004864 regulatory phosphorylation site [posttranslational modification]; other site 526222004865 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 526222004866 anti sigma factor interaction site; other site 526222004867 regulatory phosphorylation site [posttranslational modification]; other site 526222004868 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222004869 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222004870 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222004871 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222004872 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 526222004873 DAK2 domain; Region: Dak2; pfam02734 526222004874 EDD domain protein, DegV family; Region: DegV; TIGR00762 526222004875 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 526222004876 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222004877 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 526222004878 Walker A/P-loop; other site 526222004879 ATP binding site [chemical binding]; other site 526222004880 Q-loop/lid; other site 526222004881 ABC transporter signature motif; other site 526222004882 Walker B; other site 526222004883 D-loop; other site 526222004884 H-loop/switch region; other site 526222004885 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004886 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 526222004887 substrate binding pocket [chemical binding]; other site 526222004888 membrane-bound complex binding site; other site 526222004889 hinge residues; other site 526222004890 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222004891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222004892 dimer interface [polypeptide binding]; other site 526222004893 conserved gate region; other site 526222004894 putative PBP binding loops; other site 526222004895 ABC-ATPase subunit interface; other site 526222004896 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222004897 dimer interface [polypeptide binding]; other site 526222004898 conserved gate region; other site 526222004899 putative PBP binding loops; other site 526222004900 ABC-ATPase subunit interface; other site 526222004901 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 526222004902 intersubunit interface [polypeptide binding]; other site 526222004903 active site 526222004904 catalytic residue [active] 526222004905 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 526222004906 Precorrin-8X methylmutase; Region: CbiC; pfam02570 526222004907 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 526222004908 dimerization interface [polypeptide binding]; other site 526222004909 PAS domain S-box; Region: sensory_box; TIGR00229 526222004910 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 526222004911 putative active site [active] 526222004912 heme pocket [chemical binding]; other site 526222004913 PAS domain S-box; Region: sensory_box; TIGR00229 526222004914 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 526222004915 putative active site [active] 526222004916 heme pocket [chemical binding]; other site 526222004917 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222004918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004919 metal binding site [ion binding]; metal-binding site 526222004920 active site 526222004921 I-site; other site 526222004922 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 526222004923 Ferredoxin [Energy production and conversion]; Region: COG1146 526222004924 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222004925 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 526222004926 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 526222004927 dimer interface [polypeptide binding]; other site 526222004928 PYR/PP interface [polypeptide binding]; other site 526222004929 TPP binding site [chemical binding]; other site 526222004930 substrate binding site [chemical binding]; other site 526222004931 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 526222004932 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 526222004933 TPP-binding site [chemical binding]; other site 526222004934 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 526222004935 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 526222004936 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 526222004937 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 526222004938 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 526222004939 Walker A motif; other site 526222004940 ATP binding site [chemical binding]; other site 526222004941 Walker B motif; other site 526222004942 arginine finger; other site 526222004943 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222004944 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 526222004945 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 526222004946 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 526222004947 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 526222004948 dimer interface [polypeptide binding]; other site 526222004949 PYR/PP interface [polypeptide binding]; other site 526222004950 TPP binding site [chemical binding]; other site 526222004951 substrate binding site [chemical binding]; other site 526222004952 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 526222004953 TPP-binding site; other site 526222004954 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 526222004955 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 526222004956 putative catalytic cysteine [active] 526222004957 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 526222004958 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 526222004959 active site 526222004960 (T/H)XGH motif; other site 526222004961 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 526222004962 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222004963 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 526222004964 putative active site [active] 526222004965 Domain of unknown function DUF21; Region: DUF21; pfam01595 526222004966 FOG: CBS domain [General function prediction only]; Region: COG0517 526222004967 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 526222004968 CcmE; Region: CcmE; cl00994 526222004969 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 526222004970 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 526222004971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222004972 Walker A/P-loop; other site 526222004973 ATP binding site [chemical binding]; other site 526222004974 Q-loop/lid; other site 526222004975 ABC transporter signature motif; other site 526222004976 Walker B; other site 526222004977 D-loop; other site 526222004978 H-loop/switch region; other site 526222004979 CcmB protein; Region: CcmB; cl17444 526222004980 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 526222004981 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 526222004982 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 526222004983 binding surface 526222004984 TPR motif; other site 526222004985 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 526222004986 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 526222004987 dimerization interface [polypeptide binding]; other site 526222004988 ligand binding site [chemical binding]; other site 526222004989 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 526222004990 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 526222004991 TM-ABC transporter signature motif; other site 526222004992 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 526222004993 TM-ABC transporter signature motif; other site 526222004994 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 526222004995 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 526222004996 Walker A/P-loop; other site 526222004997 ATP binding site [chemical binding]; other site 526222004998 Q-loop/lid; other site 526222004999 ABC transporter signature motif; other site 526222005000 Walker B; other site 526222005001 D-loop; other site 526222005002 H-loop/switch region; other site 526222005003 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 526222005004 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 526222005005 Walker A/P-loop; other site 526222005006 ATP binding site [chemical binding]; other site 526222005007 Q-loop/lid; other site 526222005008 ABC transporter signature motif; other site 526222005009 Walker B; other site 526222005010 D-loop; other site 526222005011 H-loop/switch region; other site 526222005012 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 526222005013 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 526222005014 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 526222005015 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 526222005016 active site 526222005017 GMP synthase; Reviewed; Region: guaA; PRK00074 526222005018 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 526222005019 AMP/PPi binding site [chemical binding]; other site 526222005020 candidate oxyanion hole; other site 526222005021 catalytic triad [active] 526222005022 potential glutamine specificity residues [chemical binding]; other site 526222005023 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 526222005024 ATP Binding subdomain [chemical binding]; other site 526222005025 Ligand Binding sites [chemical binding]; other site 526222005026 Dimerization subdomain; other site 526222005027 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 526222005028 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 526222005029 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 526222005030 putative active site pocket [active] 526222005031 4-fold oligomerization interface [polypeptide binding]; other site 526222005032 metal binding residues [ion binding]; metal-binding site 526222005033 3-fold/trimer interface [polypeptide binding]; other site 526222005034 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 526222005035 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 526222005036 catalytic residues [active] 526222005037 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 526222005038 metal-binding site [ion binding] 526222005039 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 526222005040 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 526222005041 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222005042 catalytic residue [active] 526222005043 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222005044 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222005045 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222005046 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 526222005047 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 526222005048 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 526222005049 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 526222005050 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222005051 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 526222005052 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 526222005053 nucleotide binding site [chemical binding]; other site 526222005054 NEF interaction site [polypeptide binding]; other site 526222005055 SBD interface [polypeptide binding]; other site 526222005056 GrpE; Region: GrpE; pfam01025 526222005057 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 526222005058 dimer interface [polypeptide binding]; other site 526222005059 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 526222005060 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 526222005061 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 526222005062 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 526222005063 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 526222005064 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 526222005065 G1 box; other site 526222005066 GTP/Mg2+ binding site [chemical binding]; other site 526222005067 Switch I region; other site 526222005068 G2 box; other site 526222005069 G3 box; other site 526222005070 Switch II region; other site 526222005071 G4 box; other site 526222005072 G5 box; other site 526222005073 Nucleoside recognition; Region: Gate; pfam07670 526222005074 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 526222005075 Nucleoside recognition; Region: Gate; pfam07670 526222005076 MarR family; Region: MarR_2; cl17246 526222005077 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 526222005078 Clp amino terminal domain; Region: Clp_N; pfam02861 526222005079 Clp amino terminal domain; Region: Clp_N; pfam02861 526222005080 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 526222005081 Walker A motif; other site 526222005082 ATP binding site [chemical binding]; other site 526222005083 Walker B motif; other site 526222005084 arginine finger; other site 526222005085 Calmodulin-binding; Region: Enkurin; pfam13864 526222005086 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 526222005087 Walker A motif; other site 526222005088 ATP binding site [chemical binding]; other site 526222005089 Walker B motif; other site 526222005090 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 526222005091 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 526222005092 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 526222005093 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 526222005094 HSP70 interaction site [polypeptide binding]; other site 526222005095 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 526222005096 substrate binding site [polypeptide binding]; other site 526222005097 dimer interface [polypeptide binding]; other site 526222005098 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 526222005099 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 526222005100 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 526222005101 RNA binding surface [nucleotide binding]; other site 526222005102 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 526222005103 active site 526222005104 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 526222005105 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 526222005106 CoA-binding site [chemical binding]; other site 526222005107 ATP-binding [chemical binding]; other site 526222005108 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222005109 active site 526222005110 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 526222005111 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 526222005112 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 526222005113 Ligand Binding Site [chemical binding]; other site 526222005114 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 526222005115 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 526222005116 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 526222005117 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 526222005118 2-isopropylmalate synthase; Validated; Region: PRK00915 526222005119 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 526222005120 active site 526222005121 catalytic residues [active] 526222005122 metal binding site [ion binding]; metal-binding site 526222005123 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 526222005124 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 526222005125 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 526222005126 substrate binding site [chemical binding]; other site 526222005127 ligand binding site [chemical binding]; other site 526222005128 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 526222005129 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 526222005130 substrate binding site [chemical binding]; other site 526222005131 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 526222005132 tartrate dehydrogenase; Region: TTC; TIGR02089 526222005133 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 526222005134 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 526222005135 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 526222005136 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 526222005137 dihydrodipicolinate synthase; Region: dapA; TIGR00674 526222005138 dimer interface [polypeptide binding]; other site 526222005139 active site 526222005140 catalytic residue [active] 526222005141 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 526222005142 IHF - DNA interface [nucleotide binding]; other site 526222005143 IHF dimer interface [polypeptide binding]; other site 526222005144 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 526222005145 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222005146 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 526222005147 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222005148 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222005149 metal binding site [ion binding]; metal-binding site 526222005150 active site 526222005151 I-site; other site 526222005152 peptide chain release factor 2; Validated; Region: prfB; PRK00578 526222005153 This domain is found in peptide chain release factors; Region: PCRF; smart00937 526222005154 RF-1 domain; Region: RF-1; pfam00472 526222005155 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 526222005156 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 526222005157 putative active site [active] 526222005158 catalytic triad [active] 526222005159 putative dimer interface [polypeptide binding]; other site 526222005160 FOG: CBS domain [General function prediction only]; Region: COG0517 526222005161 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 526222005162 Transporter associated domain; Region: CorC_HlyC; smart01091 526222005163 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 526222005164 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 526222005165 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 526222005166 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 526222005167 diaminopimelate aminotransferase; Provisional; Region: PRK13983 526222005168 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 526222005169 metal binding site [ion binding]; metal-binding site 526222005170 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 526222005171 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 526222005172 active site 526222005173 putative substrate binding pocket [chemical binding]; other site 526222005174 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 526222005175 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222005176 active site 526222005177 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 526222005178 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 526222005179 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 526222005180 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 526222005181 IHF dimer interface [polypeptide binding]; other site 526222005182 IHF - DNA interface [nucleotide binding]; other site 526222005183 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 526222005184 Yqey-like protein; Region: YqeY; pfam09424 526222005185 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 526222005186 MutS domain III; Region: MutS_III; pfam05192 526222005187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222005188 Walker A/P-loop; other site 526222005189 ATP binding site [chemical binding]; other site 526222005190 Q-loop/lid; other site 526222005191 ABC transporter signature motif; other site 526222005192 Walker B; other site 526222005193 D-loop; other site 526222005194 H-loop/switch region; other site 526222005195 Smr domain; Region: Smr; pfam01713 526222005196 DNA primase; Validated; Region: dnaG; PRK05667 526222005197 CHC2 zinc finger; Region: zf-CHC2; pfam01807 526222005198 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 526222005199 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 526222005200 active site 526222005201 metal binding site [ion binding]; metal-binding site 526222005202 interdomain interaction site; other site 526222005203 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 526222005204 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 526222005205 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 526222005206 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222005207 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 526222005208 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 526222005209 DNA binding residues [nucleotide binding] 526222005210 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 526222005211 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 526222005212 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 526222005213 pyrroline-5-carboxylate reductase; Region: PLN02688 526222005214 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 526222005215 active site 526222005216 multimer interface [polypeptide binding]; other site 526222005217 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 526222005218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222005219 Walker A/P-loop; other site 526222005220 ATP binding site [chemical binding]; other site 526222005221 Q-loop/lid; other site 526222005222 ABC transporter signature motif; other site 526222005223 Walker B; other site 526222005224 D-loop; other site 526222005225 H-loop/switch region; other site 526222005226 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 526222005227 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 526222005228 TM-ABC transporter signature motif; other site 526222005229 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 526222005230 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 526222005231 zinc binding site [ion binding]; other site 526222005232 putative ligand binding site [chemical binding]; other site 526222005233 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 526222005234 NodB motif; other site 526222005235 putative active site [active] 526222005236 putative catalytic site [active] 526222005237 Zn binding site [ion binding]; other site 526222005238 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 526222005239 C-terminal peptidase (prc); Region: prc; TIGR00225 526222005240 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 526222005241 protein binding site [polypeptide binding]; other site 526222005242 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 526222005243 Catalytic dyad [active] 526222005244 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 526222005245 Peptidase family M23; Region: Peptidase_M23; pfam01551 526222005246 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 526222005247 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 526222005248 minor groove reading motif; other site 526222005249 helix-hairpin-helix signature motif; other site 526222005250 substrate binding pocket [chemical binding]; other site 526222005251 active site 526222005252 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 526222005253 Methyltransferase domain; Region: Methyltransf_18; pfam12847 526222005254 acetylornithine aminotransferase; Provisional; Region: PRK02627 526222005255 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 526222005256 inhibitor-cofactor binding pocket; inhibition site 526222005257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222005258 catalytic residue [active] 526222005259 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 526222005260 trimer interface [polypeptide binding]; other site 526222005261 active site 526222005262 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 526222005263 putative homodimer interface [polypeptide binding]; other site 526222005264 putative active site pocket [active] 526222005265 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 526222005266 Staphylococcal nuclease homologues; Region: SNc; smart00318 526222005267 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 526222005268 Catalytic site; other site 526222005269 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 526222005270 4Fe-4S binding domain; Region: Fer4; cl02805 526222005271 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 526222005272 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 526222005273 active site 526222005274 FMN binding site [chemical binding]; other site 526222005275 substrate binding site [chemical binding]; other site 526222005276 3Fe-4S cluster binding site [ion binding]; other site 526222005277 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222005278 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 526222005279 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 526222005280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222005281 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 526222005282 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 526222005283 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 526222005284 putative active site [active] 526222005285 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 526222005286 putative subunit interface; other site 526222005287 Preprotein translocase subunit; Region: YajC; pfam02699 526222005288 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 526222005289 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 526222005290 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 526222005291 Protein export membrane protein; Region: SecD_SecF; pfam02355 526222005292 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 526222005293 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 526222005294 aromatic amino acid transport protein; Region: araaP; TIGR00837 526222005295 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 526222005296 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 526222005297 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 526222005298 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 526222005299 Ligand Binding Site [chemical binding]; other site 526222005300 4Fe-4S binding domain; Region: Fer4_5; pfam12801 526222005301 4Fe-4S binding domain; Region: Fer4_5; pfam12801 526222005302 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222005303 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 526222005304 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 526222005305 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 526222005306 NADP binding site [chemical binding]; other site 526222005307 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 526222005308 active site 526222005309 putative substrate binding site [chemical binding]; other site 526222005310 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 526222005311 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 526222005312 NAD binding site [chemical binding]; other site 526222005313 substrate binding site [chemical binding]; other site 526222005314 homodimer interface [polypeptide binding]; other site 526222005315 active site 526222005316 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 526222005317 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 526222005318 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 526222005319 active site 526222005320 catalytic residues [active] 526222005321 DNA binding site [nucleotide binding] 526222005322 Int/Topo IB signature motif; other site 526222005323 Helix-turn-helix domain; Region: HTH_19; pfam12844 526222005324 non-specific DNA binding site [nucleotide binding]; other site 526222005325 salt bridge; other site 526222005326 sequence-specific DNA binding site [nucleotide binding]; other site 526222005327 Nuclease-related domain; Region: NERD; pfam08378 526222005328 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222005329 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 526222005330 Walker A/P-loop; other site 526222005331 ATP binding site [chemical binding]; other site 526222005332 AAA domain; Region: AAA_21; pfam13304 526222005333 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 526222005334 Q-loop/lid; other site 526222005335 ABC transporter signature motif; other site 526222005336 Walker B; other site 526222005337 D-loop; other site 526222005338 H-loop/switch region; other site 526222005339 HNH endonuclease; Region: HNH_4; pfam13395 526222005340 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222005341 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 526222005342 S-adenosylmethionine binding site [chemical binding]; other site 526222005343 Part of AAA domain; Region: AAA_19; pfam13245 526222005344 AAA domain; Region: AAA_11; pfam13086 526222005345 AAA domain; Region: AAA_12; pfam13087 526222005346 Protein of unknown function DUF45; Region: DUF45; pfam01863 526222005347 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 526222005348 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 526222005349 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 526222005350 ATP binding site [chemical binding]; other site 526222005351 putative Mg++ binding site [ion binding]; other site 526222005352 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 526222005353 GIY-YIG motif/motif A; other site 526222005354 putative active site [active] 526222005355 putative metal binding site [ion binding]; other site 526222005356 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 526222005357 cyclase homology domain; Region: CHD; cd07302 526222005358 nucleotidyl binding site; other site 526222005359 metal binding site [ion binding]; metal-binding site 526222005360 dimer interface [polypeptide binding]; other site 526222005361 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222005362 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 526222005363 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222005364 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 526222005365 HsdM N-terminal domain; Region: HsdM_N; pfam12161 526222005366 Methyltransferase domain; Region: Methyltransf_26; pfam13659 526222005367 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 526222005368 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 526222005369 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 526222005370 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 526222005371 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 526222005372 Walker A motif; other site 526222005373 ATP binding site [chemical binding]; other site 526222005374 Walker B motif; other site 526222005375 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222005376 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 526222005377 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 526222005378 active site 526222005379 DNA binding site [nucleotide binding] 526222005380 Int/Topo IB signature motif; other site 526222005381 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 526222005382 Outer membrane efflux protein; Region: OEP; pfam02321 526222005383 Outer membrane efflux protein; Region: OEP; pfam02321 526222005384 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222005385 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222005386 GAF domain; Region: GAF_3; pfam13492 526222005387 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222005388 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222005389 Peptidase family M50; Region: Peptidase_M50; pfam02163 526222005390 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 526222005391 active site 526222005392 putative substrate binding region [chemical binding]; other site 526222005393 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222005394 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222005395 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 526222005396 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 526222005397 non-specific DNA binding site [nucleotide binding]; other site 526222005398 salt bridge; other site 526222005399 sequence-specific DNA binding site [nucleotide binding]; other site 526222005400 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 526222005401 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 526222005402 Protein of unknown function, DUF462; Region: DUF462; cl01190 526222005403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 526222005404 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 526222005405 active site 526222005406 metal binding site [ion binding]; metal-binding site 526222005407 interdomain interaction site; other site 526222005408 DNA topoisomerase III; Provisional; Region: PRK07726 526222005409 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 526222005410 active site 526222005411 interdomain interaction site; other site 526222005412 putative metal-binding site [ion binding]; other site 526222005413 nucleotide binding site [chemical binding]; other site 526222005414 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 526222005415 domain I; other site 526222005416 DNA binding groove [nucleotide binding] 526222005417 phosphate binding site [ion binding]; other site 526222005418 domain II; other site 526222005419 domain III; other site 526222005420 nucleotide binding site [chemical binding]; other site 526222005421 catalytic site [active] 526222005422 domain IV; other site 526222005423 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222005424 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 526222005425 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222005426 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 526222005427 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 526222005428 chaperone protein DnaJ; Provisional; Region: PRK10767 526222005429 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 526222005430 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 526222005431 Walker A motif; other site 526222005432 ATP binding site [chemical binding]; other site 526222005433 Walker B motif; other site 526222005434 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 526222005435 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 526222005436 Phage Tail Collar Domain; Region: Collar; pfam07484 526222005437 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 526222005438 PilM; Region: PilM; pfam07419 526222005439 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 526222005440 Walker A motif; other site 526222005441 ATP binding site [chemical binding]; other site 526222005442 Walker B motif; other site 526222005443 PilS N terminal; Region: PilS; pfam08805 526222005444 PilS N terminal; Region: PilS; pfam08805 526222005445 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 526222005446 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 526222005447 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 526222005448 Walker A motif; other site 526222005449 ATP binding site [chemical binding]; other site 526222005450 Walker B motif; other site 526222005451 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 526222005452 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 526222005453 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 526222005454 conjugal transfer protein TrbH; Provisional; Region: PRK13883 526222005455 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 526222005456 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 526222005457 VirB7 interaction site; other site 526222005458 VirB8 protein; Region: VirB8; cl01500 526222005459 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 526222005460 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 526222005461 conjugal transfer protein TrbE; Provisional; Region: PRK13891 526222005462 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 526222005463 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222005464 Walker A/P-loop; other site 526222005465 ATP binding site [chemical binding]; other site 526222005466 conjugal transfer protein TrbD; Provisional; Region: PRK13823 526222005467 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 526222005468 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 526222005469 ATP binding site [chemical binding]; other site 526222005470 Walker A motif; other site 526222005471 hexamer interface [polypeptide binding]; other site 526222005472 Walker B motif; other site 526222005473 Transcriptional activator TraM; Region: Activator-TraM; cl11943 526222005474 conjugal transfer protein TraL; Provisional; Region: PRK13886 526222005475 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 526222005476 homotrimer interaction site [polypeptide binding]; other site 526222005477 putative active site [active] 526222005478 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 526222005479 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 526222005480 anti sigma factor interaction site; other site 526222005481 regulatory phosphorylation site [posttranslational modification]; other site 526222005482 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005484 active site 526222005485 phosphorylation site [posttranslational modification] 526222005486 intermolecular recognition site; other site 526222005487 dimerization interface [polypeptide binding]; other site 526222005488 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 526222005489 Histidine kinase; Region: HisKA_2; pfam07568 526222005490 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 526222005491 ATP binding site [chemical binding]; other site 526222005492 Mg2+ binding site [ion binding]; other site 526222005493 G-X-G motif; other site 526222005494 PilZ domain; Region: PilZ; cl01260 526222005495 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222005496 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 526222005497 Walker A/P-loop; other site 526222005498 ATP binding site [chemical binding]; other site 526222005499 Q-loop/lid; other site 526222005500 ABC transporter signature motif; other site 526222005501 Walker B; other site 526222005502 D-loop; other site 526222005503 H-loop/switch region; other site 526222005504 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222005505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222005506 dimer interface [polypeptide binding]; other site 526222005507 conserved gate region; other site 526222005508 putative PBP binding loops; other site 526222005509 ABC-ATPase subunit interface; other site 526222005510 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 526222005511 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222005512 substrate binding pocket [chemical binding]; other site 526222005513 membrane-bound complex binding site; other site 526222005514 hinge residues; other site 526222005515 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222005516 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 526222005517 substrate binding pocket [chemical binding]; other site 526222005518 membrane-bound complex binding site; other site 526222005519 hinge residues; other site 526222005520 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222005521 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222005522 dimer interface [polypeptide binding]; other site 526222005523 conserved gate region; other site 526222005524 putative PBP binding loops; other site 526222005525 ABC-ATPase subunit interface; other site 526222005526 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222005527 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 526222005528 Walker A/P-loop; other site 526222005529 ATP binding site [chemical binding]; other site 526222005530 Q-loop/lid; other site 526222005531 ABC transporter signature motif; other site 526222005532 Walker B; other site 526222005533 D-loop; other site 526222005534 H-loop/switch region; other site 526222005535 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222005536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005537 active site 526222005538 phosphorylation site [posttranslational modification] 526222005539 intermolecular recognition site; other site 526222005540 dimerization interface [polypeptide binding]; other site 526222005541 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222005542 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 526222005543 dimer interface [polypeptide binding]; other site 526222005544 phosphorylation site [posttranslational modification] 526222005545 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 526222005546 ATP binding site [chemical binding]; other site 526222005547 Mg2+ binding site [ion binding]; other site 526222005548 G-X-G motif; other site 526222005549 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005551 active site 526222005552 phosphorylation site [posttranslational modification] 526222005553 intermolecular recognition site; other site 526222005554 dimerization interface [polypeptide binding]; other site 526222005555 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 526222005556 Domain of unknown function DUF20; Region: UPF0118; pfam01594 526222005557 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 526222005558 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 526222005559 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 526222005560 active site 526222005561 metal binding site [ion binding]; metal-binding site 526222005562 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 526222005563 MltA specific insert domain; Region: MltA; smart00925 526222005564 3D domain; Region: 3D; pfam06725 526222005565 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 526222005566 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 526222005567 MAEBL; Provisional; Region: PTZ00121 526222005568 Predicted deacylase [General function prediction only]; Region: COG3608 526222005569 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 526222005570 putative active site [active] 526222005571 Zn binding site [ion binding]; other site 526222005572 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 526222005573 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 526222005574 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222005575 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 526222005576 electron transport complex RsxE subunit; Provisional; Region: PRK12405 526222005577 FMN-binding domain; Region: FMN_bind; cl01081 526222005578 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 526222005579 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 526222005580 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222005581 heme-binding residues [chemical binding]; other site 526222005582 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222005583 heme-binding residues [chemical binding]; other site 526222005584 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222005585 heme-binding residues [chemical binding]; other site 526222005586 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 526222005587 Alkaline phosphatase homologues; Region: alkPPc; smart00098 526222005588 active site 526222005589 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 526222005590 YibE/F-like protein; Region: YibE_F; pfam07907 526222005591 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 526222005592 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 526222005593 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 526222005594 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222005595 Zn2+ binding site [ion binding]; other site 526222005596 Mg2+ binding site [ion binding]; other site 526222005597 Predicted membrane protein [Function unknown]; Region: COG3462 526222005598 DMAP1-binding Domain; Region: DMAP_binding; pfam06464 526222005599 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005601 active site 526222005602 phosphorylation site [posttranslational modification] 526222005603 intermolecular recognition site; other site 526222005604 dimerization interface [polypeptide binding]; other site 526222005605 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 526222005606 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; cl00086 526222005607 putative binding surface; other site 526222005608 active site 526222005609 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 526222005610 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222005611 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222005612 Zn2+ binding site [ion binding]; other site 526222005613 Mg2+ binding site [ion binding]; other site 526222005614 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 526222005615 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222005616 DNA binding residues [nucleotide binding] 526222005617 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 526222005618 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 526222005619 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 526222005620 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 526222005621 metal binding site [ion binding]; metal-binding site 526222005622 Uncharacterized archaeal coiled-coil protein [Function unknown]; Region: COG1340 526222005623 NADH dehydrogenase subunit 4L; Provisional; Region: ND4L; MTH00149 526222005624 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222005625 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 526222005626 FtsX-like permease family; Region: FtsX; pfam02687 526222005627 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222005628 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 526222005629 Walker A/P-loop; other site 526222005630 ATP binding site [chemical binding]; other site 526222005631 Q-loop/lid; other site 526222005632 ABC transporter signature motif; other site 526222005633 Walker B; other site 526222005634 D-loop; other site 526222005635 H-loop/switch region; other site 526222005636 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 526222005637 FtsX-like permease family; Region: FtsX; pfam02687 526222005638 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 526222005639 NodB motif; other site 526222005640 putative active site [active] 526222005641 putative catalytic site [active] 526222005642 putative Zn binding site [ion binding]; other site 526222005643 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 526222005644 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 526222005645 catalytic core [active] 526222005646 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222005647 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 526222005648 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 526222005649 putative ADP-binding pocket [chemical binding]; other site 526222005650 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222005651 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 526222005652 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 526222005653 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 526222005654 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222005655 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 526222005656 S-adenosylmethionine binding site [chemical binding]; other site 526222005657 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 526222005658 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 526222005659 PYR/PP interface [polypeptide binding]; other site 526222005660 dimer interface [polypeptide binding]; other site 526222005661 TPP binding site [chemical binding]; other site 526222005662 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 526222005663 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 526222005664 TPP-binding site [chemical binding]; other site 526222005665 dimer interface [polypeptide binding]; other site 526222005666 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 526222005667 putative valine binding site [chemical binding]; other site 526222005668 dimer interface [polypeptide binding]; other site 526222005669 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 526222005670 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 526222005671 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 526222005672 dimer interface [polypeptide binding]; other site 526222005673 substrate binding site [chemical binding]; other site 526222005674 phosphomethylpyrimidine kinase; Provisional; Region: PRK08573 526222005675 ATP binding site [chemical binding]; other site 526222005676 Putative aldolase; Region: Aldolase_2; pfam10120 526222005677 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 526222005678 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 526222005679 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 526222005680 Na binding site [ion binding]; other site 526222005681 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 526222005682 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 526222005683 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 526222005684 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005686 active site 526222005687 phosphorylation site [posttranslational modification] 526222005688 intermolecular recognition site; other site 526222005689 dimerization interface [polypeptide binding]; other site 526222005690 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222005691 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222005692 dimer interface [polypeptide binding]; other site 526222005693 putative CheW interface [polypeptide binding]; other site 526222005694 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 526222005695 PhoH-like protein; Region: PhoH; pfam02562 526222005696 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 526222005697 ornithine carbamoyltransferase; Provisional; Region: PRK00779 526222005698 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 526222005699 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 526222005700 argininosuccinate synthase; Provisional; Region: PRK13820 526222005701 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 526222005702 ANP binding site [chemical binding]; other site 526222005703 Substrate Binding Site II [chemical binding]; other site 526222005704 Substrate Binding Site I [chemical binding]; other site 526222005705 argininosuccinate lyase; Provisional; Region: PRK00855 526222005706 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 526222005707 active sites [active] 526222005708 tetramer interface [polypeptide binding]; other site 526222005709 Hemerythrin; Region: Hemerythrin; cd12107 526222005710 Fe binding site [ion binding]; other site 526222005711 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 526222005712 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 526222005713 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 526222005714 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 526222005715 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222005716 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 526222005717 Outer membrane efflux protein; Region: OEP; pfam02321 526222005718 Outer membrane efflux protein; Region: OEP; pfam02321 526222005719 Cache domain; Region: Cache_1; pfam02743 526222005720 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 526222005721 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 526222005722 dimerization interface [polypeptide binding]; other site 526222005723 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 526222005724 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 526222005725 FtsH Extracellular; Region: FtsH_ext; pfam06480 526222005726 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 526222005727 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 526222005728 Walker A motif; other site 526222005729 ATP binding site [chemical binding]; other site 526222005730 Walker B motif; other site 526222005731 arginine finger; other site 526222005732 Peptidase family M41; Region: Peptidase_M41; pfam01434 526222005733 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 526222005734 dihydropteroate synthase; Region: DHPS; TIGR01496 526222005735 substrate binding pocket [chemical binding]; other site 526222005736 dimer interface [polypeptide binding]; other site 526222005737 inhibitor binding site; inhibition site 526222005738 Uncharacterized conserved protein [Function unknown]; Region: COG1624 526222005739 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 526222005740 YbbR-like protein; Region: YbbR; pfam07949 526222005741 YbbR-like protein; Region: YbbR; pfam07949 526222005742 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 526222005743 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 526222005744 active site 526222005745 substrate binding site [chemical binding]; other site 526222005746 metal binding site [ion binding]; metal-binding site 526222005747 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 526222005748 active site 526222005749 tetramer interface; other site 526222005750 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 526222005751 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 526222005752 ATP binding site [chemical binding]; other site 526222005753 putative Mg++ binding site [ion binding]; other site 526222005754 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 526222005755 ATP-binding site [chemical binding]; other site 526222005756 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 526222005757 anti sigma factor interaction site; other site 526222005758 regulatory phosphorylation site [posttranslational modification]; other site 526222005759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 526222005760 Smr domain; Region: Smr; pfam01713 526222005761 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 526222005762 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 526222005763 Walker A/P-loop; other site 526222005764 ATP binding site [chemical binding]; other site 526222005765 Q-loop/lid; other site 526222005766 ABC transporter signature motif; other site 526222005767 Walker B; other site 526222005768 D-loop; other site 526222005769 H-loop/switch region; other site 526222005770 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 526222005771 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 526222005772 FOG: CBS domain [General function prediction only]; Region: COG0517 526222005773 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_15; cd04803 526222005774 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 526222005775 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 526222005776 S-adenosylmethionine binding site [chemical binding]; other site 526222005777 Domain of unknown function (DUF368); Region: DUF368; pfam04018 526222005778 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 526222005779 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 526222005780 Walker A motif; other site 526222005781 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 526222005782 Septum formation initiator; Region: DivIC; pfam04977 526222005783 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 526222005784 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 526222005785 TPR motif; other site 526222005786 binding surface 526222005787 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 526222005788 AMP binding site [chemical binding]; other site 526222005789 metal binding site [ion binding]; metal-binding site 526222005790 active site 526222005791 UGMP family protein; Validated; Region: PRK09604 526222005792 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 526222005793 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 526222005794 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 526222005795 catalytic residues [active] 526222005796 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222005797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222005798 Outer membrane lipoprotein; Region: YfiO; pfam13525 526222005799 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 526222005800 elongation factor G; Reviewed; Region: PRK12740 526222005801 G1 box; other site 526222005802 putative GEF interaction site [polypeptide binding]; other site 526222005803 GTP/Mg2+ binding site [chemical binding]; other site 526222005804 Switch I region; other site 526222005805 G2 box; other site 526222005806 G3 box; other site 526222005807 Switch II region; other site 526222005808 G4 box; other site 526222005809 G5 box; other site 526222005810 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 526222005811 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 526222005812 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 526222005813 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 526222005814 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 526222005815 putative binding surface; other site 526222005816 active site 526222005817 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 526222005818 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 526222005819 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 526222005820 ATP binding site [chemical binding]; other site 526222005821 Mg2+ binding site [ion binding]; other site 526222005822 G-X-G motif; other site 526222005823 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 526222005824 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 526222005825 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 526222005826 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 526222005827 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 526222005828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005829 active site 526222005830 phosphorylation site [posttranslational modification] 526222005831 intermolecular recognition site; other site 526222005832 dimerization interface [polypeptide binding]; other site 526222005833 CheB methylesterase; Region: CheB_methylest; pfam01339 526222005834 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 526222005835 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 526222005836 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 526222005837 putative active site [active] 526222005838 putative metal binding residues [ion binding]; other site 526222005839 signature motif; other site 526222005840 putative triphosphate binding site [ion binding]; other site 526222005841 dimer interface [polypeptide binding]; other site 526222005842 Uncharacterized conserved protein [Function unknown]; Region: COG2127 526222005843 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 526222005844 Clp amino terminal domain; Region: Clp_N; pfam02861 526222005845 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 526222005846 Walker A motif; other site 526222005847 ATP binding site [chemical binding]; other site 526222005848 Walker B motif; other site 526222005849 arginine finger; other site 526222005850 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 526222005851 Walker A motif; other site 526222005852 ATP binding site [chemical binding]; other site 526222005853 Walker B motif; other site 526222005854 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 526222005855 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 526222005856 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 526222005857 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 526222005858 active site 526222005859 metal binding site [ion binding]; metal-binding site 526222005860 excinuclease ABC subunit B; Provisional; Region: PRK05298 526222005861 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 526222005862 ATP binding site [chemical binding]; other site 526222005863 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 526222005864 nucleotide binding region [chemical binding]; other site 526222005865 ATP-binding site [chemical binding]; other site 526222005866 Ultra-violet resistance protein B; Region: UvrB; pfam12344 526222005867 Ion channel; Region: Ion_trans_2; pfam07885 526222005868 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 526222005869 TrkA-N domain; Region: TrkA_N; pfam02254 526222005870 TrkA-C domain; Region: TrkA_C; pfam02080 526222005871 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 526222005872 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; cl03295 526222005873 nucleotide binding pocket [chemical binding]; other site 526222005874 K-X-D-G motif; other site 526222005875 catalytic site [active] 526222005876 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 526222005877 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 526222005878 Dimer interface [polypeptide binding]; other site 526222005879 BRCT sequence motif; other site 526222005880 dihydrodipicolinate reductase; Provisional; Region: PRK00048 526222005881 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 526222005882 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 526222005883 phosphodiesterase YaeI; Provisional; Region: PRK11340 526222005884 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 526222005885 putative active site [active] 526222005886 putative metal binding site [ion binding]; other site 526222005887 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 526222005888 classical (c) SDRs; Region: SDR_c; cd05233 526222005889 NAD(P) binding site [chemical binding]; other site 526222005890 active site 526222005891 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222005892 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 526222005893 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 526222005894 Histidine kinase; Region: HisKA_3; pfam07730 526222005895 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 526222005896 ATP binding site [chemical binding]; other site 526222005897 Mg2+ binding site [ion binding]; other site 526222005898 G-X-G motif; other site 526222005899 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 526222005900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005901 active site 526222005902 phosphorylation site [posttranslational modification] 526222005903 intermolecular recognition site; other site 526222005904 dimerization interface [polypeptide binding]; other site 526222005905 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 526222005906 DNA binding residues [nucleotide binding] 526222005907 dimerization interface [polypeptide binding]; other site 526222005908 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222005909 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 526222005910 substrate binding pocket [chemical binding]; other site 526222005911 membrane-bound complex binding site; other site 526222005912 hinge residues; other site 526222005913 Uncharacterized conserved protein [Function unknown]; Region: COG1359 526222005914 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 526222005915 Flavin Reductases; Region: FlaRed; cl00801 526222005916 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222005917 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222005918 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 526222005919 putative FMN binding site [chemical binding]; other site 526222005920 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 526222005921 putative active site [active] 526222005922 Zn binding site [ion binding]; other site 526222005923 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 526222005924 transmembrane helices; other site 526222005925 TrkA-C domain; Region: TrkA_C; pfam02080 526222005926 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222005927 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 526222005928 HAMP domain; Region: HAMP; pfam00672 526222005929 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222005930 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 526222005931 Walker A motif; other site 526222005932 ATP binding site [chemical binding]; other site 526222005933 Walker B motif; other site 526222005934 arginine finger; other site 526222005935 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 526222005936 dimer interface [polypeptide binding]; other site 526222005937 phosphorylation site [posttranslational modification] 526222005938 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 526222005939 ATP binding site [chemical binding]; other site 526222005940 G-X-G motif; other site 526222005941 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005942 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005943 active site 526222005944 phosphorylation site [posttranslational modification] 526222005945 intermolecular recognition site; other site 526222005946 dimerization interface [polypeptide binding]; other site 526222005947 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005948 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005949 active site 526222005950 phosphorylation site [posttranslational modification] 526222005951 intermolecular recognition site; other site 526222005952 dimerization interface [polypeptide binding]; other site 526222005953 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222005954 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 526222005955 transmembrane helices; other site 526222005956 putative diguanylate cyclase; Provisional; Region: PRK09776 526222005957 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005959 active site 526222005960 phosphorylation site [posttranslational modification] 526222005961 intermolecular recognition site; other site 526222005962 dimerization interface [polypeptide binding]; other site 526222005963 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222005964 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 526222005965 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222005966 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 526222005967 dimer interface [polypeptide binding]; other site 526222005968 phosphorylation site [posttranslational modification] 526222005969 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 526222005970 ATP binding site [chemical binding]; other site 526222005971 Mg2+ binding site [ion binding]; other site 526222005972 G-X-G motif; other site 526222005973 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005975 active site 526222005976 phosphorylation site [posttranslational modification] 526222005977 intermolecular recognition site; other site 526222005978 dimerization interface [polypeptide binding]; other site 526222005979 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 526222005980 dimer interface [polypeptide binding]; other site 526222005981 phosphorylation site [posttranslational modification] 526222005982 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 526222005983 ATP binding site [chemical binding]; other site 526222005984 Mg2+ binding site [ion binding]; other site 526222005985 G-X-G motif; other site 526222005986 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222005988 active site 526222005989 phosphorylation site [posttranslational modification] 526222005990 intermolecular recognition site; other site 526222005991 dimerization interface [polypeptide binding]; other site 526222005992 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222005993 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222005994 dimer interface [polypeptide binding]; other site 526222005995 putative CheW interface [polypeptide binding]; other site 526222005996 hypothetical protein; Provisional; Region: PRK06851 526222005997 hypothetical protein; Provisional; Region: PRK06761 526222005998 Glucose inhibited division protein A; Region: GIDA; pfam01134 526222005999 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222006000 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 526222006001 hypothetical protein; Provisional; Region: PRK05802 526222006002 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 526222006003 FAD binding pocket [chemical binding]; other site 526222006004 FAD binding motif [chemical binding]; other site 526222006005 phosphate binding motif [ion binding]; other site 526222006006 beta-alpha-beta structure motif; other site 526222006007 NAD binding pocket [chemical binding]; other site 526222006008 Iron coordination center [ion binding]; other site 526222006009 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222006010 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 526222006011 Walker A/P-loop; other site 526222006012 ATP binding site [chemical binding]; other site 526222006013 Q-loop/lid; other site 526222006014 ABC transporter signature motif; other site 526222006015 Walker B; other site 526222006016 D-loop; other site 526222006017 H-loop/switch region; other site 526222006018 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 526222006019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222006020 dimer interface [polypeptide binding]; other site 526222006021 conserved gate region; other site 526222006022 putative PBP binding loops; other site 526222006023 ABC-ATPase subunit interface; other site 526222006024 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 526222006025 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222006026 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 526222006027 S-adenosylmethionine binding site [chemical binding]; other site 526222006028 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 526222006029 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 526222006030 N-terminal plug; other site 526222006031 ligand-binding site [chemical binding]; other site 526222006032 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222006033 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222006034 Response regulator receiver domain; Region: Response_reg; pfam00072 526222006035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222006036 active site 526222006037 phosphorylation site [posttranslational modification] 526222006038 intermolecular recognition site; other site 526222006039 dimerization interface [polypeptide binding]; other site 526222006040 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222006041 active site 526222006042 phosphorylation site [posttranslational modification] 526222006043 intermolecular recognition site; other site 526222006044 dimerization interface [polypeptide binding]; other site 526222006045 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222006046 Zn2+ binding site [ion binding]; other site 526222006047 Mg2+ binding site [ion binding]; other site 526222006048 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222006049 Catalytic site; other site 526222006050 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 526222006051 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 526222006052 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 526222006053 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222006054 substrate binding pocket [chemical binding]; other site 526222006055 membrane-bound complex binding site; other site 526222006056 hinge residues; other site 526222006057 NMT1/THI5 like; Region: NMT1; pfam09084 526222006058 PAS domain S-box; Region: sensory_box; TIGR00229 526222006059 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 526222006060 putative active site [active] 526222006061 heme pocket [chemical binding]; other site 526222006062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222006063 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 526222006064 dimer interface [polypeptide binding]; other site 526222006065 phosphorylation site [posttranslational modification] 526222006066 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 526222006067 ATP binding site [chemical binding]; other site 526222006068 Mg2+ binding site [ion binding]; other site 526222006069 G-X-G motif; other site 526222006070 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 526222006071 Predicted permeases [General function prediction only]; Region: COG0795 526222006072 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 526222006073 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 526222006074 Predicted permeases [General function prediction only]; Region: COG0795 526222006075 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 526222006076 G1 box; other site 526222006077 GTP/Mg2+ binding site [chemical binding]; other site 526222006078 Switch I region; other site 526222006079 G2 box; other site 526222006080 G3 box; other site 526222006081 Switch II region; other site 526222006082 G4 box; other site 526222006083 G5 box; other site 526222006084 Dehydroquinase class II; Region: DHquinase_II; pfam01220 526222006085 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 526222006086 trimer interface [polypeptide binding]; other site 526222006087 active site 526222006088 dimer interface [polypeptide binding]; other site 526222006089 elongation factor P; Validated; Region: PRK00529 526222006090 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 526222006091 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 526222006092 RNA binding site [nucleotide binding]; other site 526222006093 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 526222006094 RNA binding site [nucleotide binding]; other site 526222006095 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 526222006096 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 526222006097 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 526222006098 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 526222006099 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 526222006100 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 526222006101 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 526222006102 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 526222006103 RNA binding surface [nucleotide binding]; other site 526222006104 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 526222006105 active site 526222006106 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 526222006107 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 526222006108 CPxP motif; other site 526222006109 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 526222006110 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 526222006111 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 526222006112 Walker A/P-loop; other site 526222006113 ATP binding site [chemical binding]; other site 526222006114 Q-loop/lid; other site 526222006115 ABC transporter signature motif; other site 526222006116 Walker B; other site 526222006117 D-loop; other site 526222006118 H-loop/switch region; other site 526222006119 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 526222006120 putative acyl-acceptor binding pocket; other site 526222006121 Cache domain; Region: Cache_1; pfam02743 526222006122 HAMP domain; Region: HAMP; pfam00672 526222006123 dimerization interface [polypeptide binding]; other site 526222006124 PAS fold; Region: PAS; pfam00989 526222006125 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 526222006126 putative active site [active] 526222006127 heme pocket [chemical binding]; other site 526222006128 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222006129 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222006130 dimer interface [polypeptide binding]; other site 526222006131 putative CheW interface [polypeptide binding]; other site 526222006132 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222006133 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222006134 Zn2+ binding site [ion binding]; other site 526222006135 Mg2+ binding site [ion binding]; other site 526222006136 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222006137 dimer interface [polypeptide binding]; other site 526222006138 conserved gate region; other site 526222006139 putative PBP binding loops; other site 526222006140 ABC-ATPase subunit interface; other site 526222006141 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 526222006142 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222006143 substrate binding pocket [chemical binding]; other site 526222006144 membrane-bound complex binding site; other site 526222006145 hinge residues; other site 526222006146 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222006147 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 526222006148 substrate binding pocket [chemical binding]; other site 526222006149 membrane-bound complex binding site; other site 526222006150 hinge residues; other site 526222006151 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222006152 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222006153 dimer interface [polypeptide binding]; other site 526222006154 conserved gate region; other site 526222006155 putative PBP binding loops; other site 526222006156 ABC-ATPase subunit interface; other site 526222006157 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 526222006158 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 526222006159 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 526222006160 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 526222006161 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 526222006162 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 526222006163 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 526222006164 intersubunit interface [polypeptide binding]; other site 526222006165 active site 526222006166 zinc binding site [ion binding]; other site 526222006167 Na+ binding site [ion binding]; other site 526222006168 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 526222006169 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 526222006170 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 526222006171 generic binding surface I; other site 526222006172 generic binding surface II; other site 526222006173 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222006174 Zn2+ binding site [ion binding]; other site 526222006175 Mg2+ binding site [ion binding]; other site 526222006176 thymidylate kinase; Validated; Region: tmk; PRK00698 526222006177 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 526222006178 TMP-binding site; other site 526222006179 ATP-binding site [chemical binding]; other site 526222006180 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 526222006181 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 526222006182 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 526222006183 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 526222006184 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 526222006185 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 526222006186 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 526222006187 putative substrate-binding site; other site 526222006188 nickel binding site [ion binding]; other site 526222006189 HupF/HypC family; Region: HupF_HypC; pfam01455 526222006190 A bacterial subgroup of the C-type lectin-like (CTLD) domain; a subgroup of bacterial protein domains homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins; Region: CLECT_VCBS; cd03603 526222006191 ligand binding surface [chemical binding]; other site 526222006192 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 526222006193 peptidase T-like protein; Region: PepT-like; TIGR01883 526222006194 metal binding site [ion binding]; metal-binding site 526222006195 putative dimer interface [polypeptide binding]; other site 526222006196 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 526222006197 homodimer interaction site [polypeptide binding]; other site 526222006198 cofactor binding site; other site 526222006199 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222006200 heme-binding residues [chemical binding]; other site 526222006201 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 526222006202 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 526222006203 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 526222006204 [4Fe-4S] binding site [ion binding]; other site 526222006205 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 526222006206 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 526222006207 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 526222006208 molybdopterin cofactor binding site; other site 526222006209 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222006210 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 526222006211 S-adenosylmethionine binding site [chemical binding]; other site 526222006212 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 526222006213 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 526222006214 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 526222006215 GAF domain; Region: GAF; pfam01590 526222006216 GAF domain; Region: GAF_2; pfam13185 526222006217 GAF domain; Region: GAF_3; pfam13492 526222006218 GAF domain; Region: GAF_2; pfam13185 526222006219 rod shape-determining protein MreB; Provisional; Region: PRK13930 526222006220 MreB and similar proteins; Region: MreB_like; cd10225 526222006221 nucleotide binding site [chemical binding]; other site 526222006222 Mg binding site [ion binding]; other site 526222006223 putative protofilament interaction site [polypeptide binding]; other site 526222006224 RodZ interaction site [polypeptide binding]; other site 526222006225 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 526222006226 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 526222006227 active site 526222006228 dimerization interface [polypeptide binding]; other site 526222006229 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 526222006230 nudix motif; other site 526222006231 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 526222006232 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222006233 Coenzyme A binding pocket [chemical binding]; other site 526222006234 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 526222006235 Phosphoglycerate kinase; Region: PGK; pfam00162 526222006236 substrate binding site [chemical binding]; other site 526222006237 hinge regions; other site 526222006238 ADP binding site [chemical binding]; other site 526222006239 catalytic site [active] 526222006240 triosephosphate isomerase; Provisional; Region: PRK14565 526222006241 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 526222006242 substrate binding site [chemical binding]; other site 526222006243 dimer interface [polypeptide binding]; other site 526222006244 catalytic triad [active] 526222006245 Preprotein translocase SecG subunit; Region: SecG; pfam03840 526222006246 SnoaL-like domain; Region: SnoaL_2; pfam12680 526222006247 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 526222006248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222006249 Coenzyme A binding pocket [chemical binding]; other site 526222006250 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 526222006251 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 526222006252 active site 526222006253 Ion channel; Region: Ion_trans_2; pfam07885 526222006254 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 526222006255 TrkA-N domain; Region: TrkA_N; pfam02254 526222006256 Hemerythrin; Region: Hemerythrin; cd12107 526222006257 Fe binding site [ion binding]; other site 526222006258 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 526222006259 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 526222006260 metal binding site [ion binding]; metal-binding site 526222006261 putative dimer interface [polypeptide binding]; other site 526222006262 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006263 Class I aldolases; Region: Aldolase_Class_I; cl17187 526222006264 catalytic residue [active] 526222006265 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 526222006266 catalytic center binding site [active] 526222006267 ATP binding site [chemical binding]; other site 526222006268 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 526222006269 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 526222006270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222006271 homodimer interface [polypeptide binding]; other site 526222006272 catalytic residue [active] 526222006273 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 526222006274 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 526222006275 active site 526222006276 Int/Topo IB signature motif; other site 526222006277 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 526222006278 DHH family; Region: DHH; pfam01368 526222006279 DHHA1 domain; Region: DHHA1; pfam02272 526222006280 FOG: CBS domain [General function prediction only]; Region: COG0517 526222006281 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 526222006282 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 526222006283 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 526222006284 active site 526222006285 NTP binding site [chemical binding]; other site 526222006286 metal binding triad [ion binding]; metal-binding site 526222006287 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 526222006288 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 526222006289 nucleotide binding site/active site [active] 526222006290 HIT family signature motif; other site 526222006291 catalytic residue [active] 526222006292 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 526222006293 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 526222006294 TPR motif; other site 526222006295 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006296 binding surface 526222006297 TPR repeat; Region: TPR_11; pfam13414 526222006298 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 526222006299 binding surface 526222006300 TPR motif; other site 526222006301 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 526222006302 MutS domain I; Region: MutS_I; pfam01624 526222006303 MutS domain II; Region: MutS_II; pfam05188 526222006304 MutS domain III; Region: MutS_III; pfam05192 526222006305 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 526222006306 Walker A/P-loop; other site 526222006307 ATP binding site [chemical binding]; other site 526222006308 Q-loop/lid; other site 526222006309 ABC transporter signature motif; other site 526222006310 Walker B; other site 526222006311 D-loop; other site 526222006312 H-loop/switch region; other site 526222006313 diaminopimelate decarboxylase; Region: lysA; TIGR01048 526222006314 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 526222006315 active site 526222006316 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 526222006317 substrate binding site [chemical binding]; other site 526222006318 catalytic residues [active] 526222006319 dimer interface [polypeptide binding]; other site 526222006320 RNA methyltransferase, RsmE family; Region: TIGR00046 526222006321 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 526222006322 recombination factor protein RarA; Reviewed; Region: PRK13342 526222006323 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 526222006324 Walker A motif; other site 526222006325 ATP binding site [chemical binding]; other site 526222006326 Walker B motif; other site 526222006327 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 526222006328 PAS domain; Region: PAS; smart00091 526222006329 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222006330 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 526222006331 dimer interface [polypeptide binding]; other site 526222006332 phosphorylation site [posttranslational modification] 526222006333 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 526222006334 ATP binding site [chemical binding]; other site 526222006335 Mg2+ binding site [ion binding]; other site 526222006336 G-X-G motif; other site 526222006337 HDOD domain; Region: HDOD; pfam08668 526222006338 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222006339 Zn2+ binding site [ion binding]; other site 526222006340 Mg2+ binding site [ion binding]; other site 526222006341 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 526222006342 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 526222006343 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 526222006344 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 526222006345 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 526222006346 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222006347 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 526222006348 putative active site [active] 526222006349 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 526222006350 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 526222006351 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 526222006352 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 526222006353 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 526222006354 tRNA; other site 526222006355 putative tRNA binding site [nucleotide binding]; other site 526222006356 putative NADP binding site [chemical binding]; other site 526222006357 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 526222006358 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 526222006359 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 526222006360 Ligand Binding Site [chemical binding]; other site 526222006361 adenylate kinase; Provisional; Region: PRK14529 526222006362 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 526222006363 AMP-binding site [chemical binding]; other site 526222006364 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 526222006365 Uncharacterized protein conserved in archaea (DUF2100); Region: DUF2100; cl17851 526222006366 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 526222006367 putative trimer interface [polypeptide binding]; other site 526222006368 putative CoA binding site [chemical binding]; other site 526222006369 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 526222006370 MgtE intracellular N domain; Region: MgtE_N; smart00924 526222006371 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 526222006372 Divalent cation transporter; Region: MgtE; pfam01769 526222006373 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 526222006374 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 526222006375 dimerization interface [polypeptide binding]; other site 526222006376 active site 526222006377 quinolinate synthetase; Provisional; Region: PRK09375 526222006378 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 526222006379 L-aspartate oxidase; Provisional; Region: PRK06175 526222006380 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 526222006381 Cation transport protein; Region: TrkH; cl17365 526222006382 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 526222006383 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 526222006384 TrkA-N domain; Region: TrkA_N; pfam02254 526222006385 TrkA-C domain; Region: TrkA_C; pfam02080 526222006386 TrkA-N domain; Region: TrkA_N; pfam02254 526222006387 TrkA-C domain; Region: TrkA_C; pfam02080 526222006388 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 526222006389 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 526222006390 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 526222006391 DALR anticodon binding domain; Region: DALR_1; pfam05746 526222006392 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 526222006393 dimer interface [polypeptide binding]; other site 526222006394 motif 1; other site 526222006395 active site 526222006396 motif 2; other site 526222006397 motif 3; other site 526222006398 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 526222006399 Recombination protein O N terminal; Region: RecO_N; pfam11967 526222006400 Recombination protein O C terminal; Region: RecO_C; pfam02565 526222006401 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 526222006402 non-specific DNA binding site [nucleotide binding]; other site 526222006403 salt bridge; other site 526222006404 sequence-specific DNA binding site [nucleotide binding]; other site 526222006405 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 526222006406 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 526222006407 SurA N-terminal domain; Region: SurA_N; pfam09312 526222006408 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 526222006409 SurA N-terminal domain; Region: SurA_N_3; cl07813 526222006410 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 526222006411 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 526222006412 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 526222006413 ATP binding site [chemical binding]; other site 526222006414 putative Mg++ binding site [ion binding]; other site 526222006415 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 526222006416 nucleotide binding region [chemical binding]; other site 526222006417 ATP-binding site [chemical binding]; other site 526222006418 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 526222006419 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 526222006420 putative CheA interaction surface; other site 526222006421 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 526222006422 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 526222006423 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 526222006424 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 526222006425 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 526222006426 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 526222006427 active site 526222006428 hydrophilic channel; other site 526222006429 dimerization interface [polypeptide binding]; other site 526222006430 catalytic residues [active] 526222006431 active site lid [active] 526222006432 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14657 526222006433 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 526222006434 putative carbohydrate kinase; Provisional; Region: PRK10565 526222006435 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 526222006436 putative substrate binding site [chemical binding]; other site 526222006437 putative ATP binding site [chemical binding]; other site 526222006438 FOG: CBS domain [General function prediction only]; Region: COG0517 526222006439 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 526222006440 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 526222006441 aspartate kinase; Reviewed; Region: PRK06635 526222006442 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 526222006443 putative nucleotide binding site [chemical binding]; other site 526222006444 putative catalytic residues [active] 526222006445 putative Mg ion binding site [ion binding]; other site 526222006446 putative aspartate binding site [chemical binding]; other site 526222006447 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 526222006448 putative allosteric regulatory site; other site 526222006449 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 526222006450 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 526222006451 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 526222006452 active site 526222006453 catalytic residues [active] 526222006454 metal binding site [ion binding]; metal-binding site 526222006455 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 526222006456 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 526222006457 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 526222006458 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 526222006459 active site 526222006460 catalytic site [active] 526222006461 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 526222006462 Protein of unknown function (DUF493); Region: DUF493; pfam04359 526222006463 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 526222006464 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 526222006465 active site 526222006466 HIGH motif; other site 526222006467 nucleotide binding site [chemical binding]; other site 526222006468 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 526222006469 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 526222006470 active site 526222006471 KMSKS motif; other site 526222006472 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 526222006473 tRNA binding surface [nucleotide binding]; other site 526222006474 anticodon binding site; other site 526222006475 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 526222006476 lipoprotein signal peptidase; Provisional; Region: PRK14787 526222006477 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 526222006478 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 526222006479 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 526222006480 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 526222006481 Tetratricopeptide repeat; Region: TPR_6; pfam13174 526222006482 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 526222006483 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222006484 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222006485 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 526222006486 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 526222006487 binding surface 526222006488 TPR motif; other site 526222006489 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006490 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006491 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006492 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 526222006493 binding surface 526222006494 TPR motif; other site 526222006495 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006496 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 526222006497 binding surface 526222006498 TPR motif; other site 526222006499 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006500 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 526222006501 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 526222006502 ATP-grasp domain; Region: ATP-grasp; pfam02222 526222006503 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 526222006504 Flavoprotein; Region: Flavoprotein; pfam02441 526222006505 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 526222006506 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222006507 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 526222006508 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 526222006509 GIY-YIG motif/motif A; other site 526222006510 active site 526222006511 catalytic site [active] 526222006512 putative DNA binding site [nucleotide binding]; other site 526222006513 metal binding site [ion binding]; metal-binding site 526222006514 UvrB/uvrC motif; Region: UVR; pfam02151 526222006515 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 526222006516 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 526222006517 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 526222006518 histidinol dehydrogenase; Region: hisD; TIGR00069 526222006519 NAD binding site [chemical binding]; other site 526222006520 dimerization interface [polypeptide binding]; other site 526222006521 product binding site; other site 526222006522 substrate binding site [chemical binding]; other site 526222006523 zinc binding site [ion binding]; other site 526222006524 catalytic residues [active] 526222006525 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 526222006526 ATP binding site [chemical binding]; other site 526222006527 active site 526222006528 substrate binding site [chemical binding]; other site 526222006529 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 526222006530 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 526222006531 NAD binding site [chemical binding]; other site 526222006532 homotetramer interface [polypeptide binding]; other site 526222006533 homodimer interface [polypeptide binding]; other site 526222006534 substrate binding site [chemical binding]; other site 526222006535 active site 526222006536 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 526222006537 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 526222006538 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 526222006539 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 526222006540 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 526222006541 replicative DNA helicase; Region: DnaB; TIGR00665 526222006542 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 526222006543 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 526222006544 Walker A motif; other site 526222006545 ATP binding site [chemical binding]; other site 526222006546 Walker B motif; other site 526222006547 DNA binding loops [nucleotide binding] 526222006548 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 526222006549 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222006550 acyl-activating enzyme (AAE) consensus motif; other site 526222006551 AMP binding site [chemical binding]; other site 526222006552 active site 526222006553 CoA binding site [chemical binding]; other site 526222006554 Protein of unknown function (DUF456); Region: DUF456; pfam04306 526222006555 threonine synthase; Validated; Region: PRK06260 526222006556 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 526222006557 homodimer interface [polypeptide binding]; other site 526222006558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222006559 catalytic residue [active] 526222006560 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 526222006561 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 526222006562 RNA binding surface [nucleotide binding]; other site 526222006563 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 526222006564 S-adenosylmethionine binding site [chemical binding]; other site 526222006565 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 526222006566 conserved hypothetical protein; Region: TIGR02231 526222006567 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 526222006568 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 526222006569 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 526222006570 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 526222006571 NAD binding site [chemical binding]; other site 526222006572 homodimer interface [polypeptide binding]; other site 526222006573 active site 526222006574 substrate binding site [chemical binding]; other site 526222006575 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 526222006576 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222006577 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 526222006578 S-adenosylmethionine binding site [chemical binding]; other site 526222006579 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 526222006580 Thioredoxin; Region: Thioredoxin_4; pfam13462 526222006581 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 526222006582 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222006583 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 526222006584 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 526222006585 Src homology 2 (SH2) domain; Region: SH2; cl15255 526222006586 phosphotyrosine binding pocket [polypeptide binding]; other site 526222006587 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 526222006588 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 526222006589 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222006590 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 526222006591 ligand binding site [chemical binding]; other site 526222006592 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222006593 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 526222006594 ligand binding site [chemical binding]; other site 526222006595 flexible hinge region; other site 526222006596 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 526222006597 Uncharacterized conserved protein [Function unknown]; Region: COG0398 526222006598 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 526222006599 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 526222006600 metal binding triad [ion binding]; metal-binding site 526222006601 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 526222006602 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 526222006603 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 526222006604 CoA-ligase; Region: Ligase_CoA; pfam00549 526222006605 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 526222006606 CoA binding domain; Region: CoA_binding; pfam02629 526222006607 CoA-ligase; Region: Ligase_CoA; pfam00549 526222006608 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222006609 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 526222006610 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 526222006611 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 526222006612 nickel binding site [ion binding]; other site 526222006613 putative substrate-binding site; other site 526222006614 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 526222006615 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 526222006616 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 526222006617 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 526222006618 Protein of unknown function (DUF1628); Region: DUF1628; cl01360 526222006619 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 526222006620 Peptidase family M23; Region: Peptidase_M23; pfam01551 526222006621 YibE/F-like protein; Region: YibE_F; pfam07907 526222006622 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 526222006623 Alkaline phosphatase homologues; Region: alkPPc; smart00098 526222006624 active site 526222006625 dimer interface [polypeptide binding]; other site 526222006626 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 526222006627 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 526222006628 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 526222006629 Walker A/P-loop; other site 526222006630 ATP binding site [chemical binding]; other site 526222006631 Q-loop/lid; other site 526222006632 ABC transporter signature motif; other site 526222006633 Walker B; other site 526222006634 D-loop; other site 526222006635 H-loop/switch region; other site 526222006636 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 526222006637 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 526222006638 ABC-ATPase subunit interface; other site 526222006639 dimer interface [polypeptide binding]; other site 526222006640 putative PBP binding regions; other site 526222006641 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 526222006642 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 526222006643 putative metal binding site [ion binding]; other site 526222006644 Beta-lactamase; Region: Beta-lactamase; pfam00144 526222006645 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 526222006646 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 526222006647 Found in ATP-dependent protease La (LON); Region: LON; smart00464 526222006648 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 526222006649 Walker A motif; other site 526222006650 ATP binding site [chemical binding]; other site 526222006651 Walker B motif; other site 526222006652 arginine finger; other site 526222006653 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 526222006654 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222006655 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 526222006656 PAS fold; Region: PAS_3; pfam08447 526222006657 putative active site [active] 526222006658 heme pocket [chemical binding]; other site 526222006659 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 526222006660 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222006661 putative active site [active] 526222006662 heme pocket [chemical binding]; other site 526222006663 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 526222006664 dimer interface [polypeptide binding]; other site 526222006665 phosphorylation site [posttranslational modification] 526222006666 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 526222006667 ATP binding site [chemical binding]; other site 526222006668 Mg2+ binding site [ion binding]; other site 526222006669 G-X-G motif; other site 526222006670 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 526222006671 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 526222006672 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 526222006673 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 526222006674 Walker A motif; other site 526222006675 ATP binding site [chemical binding]; other site 526222006676 Walker B motif; other site 526222006677 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 526222006678 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 526222006679 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 526222006680 oligomer interface [polypeptide binding]; other site 526222006681 active site residues [active] 526222006682 trigger factor; Region: tig; TIGR00115 526222006683 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 526222006684 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 526222006685 TPR repeat; Region: TPR_11; pfam13414 526222006686 Herpesvirus large structural phosphoprotein UL32; Region: Herpes_UL32; pfam06070 526222006687 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 526222006688 Sodium Bile acid symporter family; Region: SBF; cl17470 526222006689 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222006690 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 526222006691 ligand binding site [chemical binding]; other site 526222006692 flexible hinge region; other site 526222006693 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 526222006694 putative switch regulator; other site 526222006695 non-specific DNA interactions [nucleotide binding]; other site 526222006696 DNA binding site [nucleotide binding] 526222006697 sequence specific DNA binding site [nucleotide binding]; other site 526222006698 putative cAMP binding site [chemical binding]; other site 526222006699 LysE type translocator; Region: LysE; cl00565 526222006700 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 526222006701 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222006702 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222006703 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222006704 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222006705 dimer interface [polypeptide binding]; other site 526222006706 putative CheW interface [polypeptide binding]; other site 526222006707 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 526222006708 Peptidase family M23; Region: Peptidase_M23; pfam01551 526222006709 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222006710 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222006711 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 526222006712 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 526222006713 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 526222006714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222006715 Walker A/P-loop; other site 526222006716 ATP binding site [chemical binding]; other site 526222006717 Q-loop/lid; other site 526222006718 ABC transporter signature motif; other site 526222006719 Walker B; other site 526222006720 D-loop; other site 526222006721 H-loop/switch region; other site 526222006722 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 526222006723 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 526222006724 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 526222006725 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222006726 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222006727 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 526222006728 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 526222006729 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222006730 Walker A/P-loop; other site 526222006731 ATP binding site [chemical binding]; other site 526222006732 Q-loop/lid; other site 526222006733 ABC transporter signature motif; other site 526222006734 Walker B; other site 526222006735 D-loop; other site 526222006736 H-loop/switch region; other site 526222006737 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 526222006738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222006739 Walker A/P-loop; other site 526222006740 ATP binding site [chemical binding]; other site 526222006741 ABC transporter; Region: ABC_tran; pfam00005 526222006742 Q-loop/lid; other site 526222006743 ABC transporter signature motif; other site 526222006744 Walker B; other site 526222006745 D-loop; other site 526222006746 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 526222006747 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 526222006748 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222006749 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 526222006750 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 526222006751 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 526222006752 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 526222006753 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 526222006754 binding surface 526222006755 TPR motif; other site 526222006756 Helix-turn-helix domain; Region: HTH_18; pfam12833 526222006757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222006758 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222006759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222006760 active site 526222006761 phosphorylation site [posttranslational modification] 526222006762 intermolecular recognition site; other site 526222006763 dimerization interface [polypeptide binding]; other site 526222006764 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 526222006765 Walker A motif; other site 526222006766 ATP binding site [chemical binding]; other site 526222006767 Walker B motif; other site 526222006768 arginine finger; other site 526222006769 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222006770 Sensory domain found in PocR; Region: PocR; pfam10114 526222006771 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 526222006772 PAS domain S-box; Region: sensory_box; TIGR00229 526222006773 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 526222006774 putative active site [active] 526222006775 heme pocket [chemical binding]; other site 526222006776 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 526222006777 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 526222006778 ATP binding site [chemical binding]; other site 526222006779 Mg2+ binding site [ion binding]; other site 526222006780 G-X-G motif; other site 526222006781 Domain of unknown function (DUF336); Region: DUF336; pfam03928 526222006782 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 526222006783 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 526222006784 dimer interface [polypeptide binding]; other site 526222006785 active site 526222006786 glycine loop; other site 526222006787 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 526222006788 CHASE domain; Region: CHASE; cl01369 526222006789 PAS fold; Region: PAS_3; pfam08447 526222006790 PAS domain S-box; Region: sensory_box; TIGR00229 526222006791 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 526222006792 putative active site [active] 526222006793 heme pocket [chemical binding]; other site 526222006794 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 526222006795 PAS fold; Region: PAS_3; pfam08447 526222006796 putative active site [active] 526222006797 heme pocket [chemical binding]; other site 526222006798 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222006799 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222006800 metal binding site [ion binding]; metal-binding site 526222006801 active site 526222006802 I-site; other site 526222006803 Methylamine utilisation protein MauE; Region: MauE; pfam07291 526222006804 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 526222006805 active site residue [active] 526222006806 Cupin domain; Region: Cupin_2; pfam07883 526222006807 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 526222006808 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 526222006809 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 526222006810 Cache domain; Region: Cache_2; cl07034 526222006811 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 526222006812 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222006813 dimer interface [polypeptide binding]; other site 526222006814 putative CheW interface [polypeptide binding]; other site 526222006815 TolA protein; Region: tolA_full; TIGR02794 526222006816 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 526222006817 BON domain; Region: BON; pfam04972 526222006818 PEGA domain; Region: PEGA; pfam08308 526222006819 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 526222006820 Caspase domain; Region: Peptidase_C14; pfam00656 526222006821 substrate pocket [chemical binding]; other site 526222006822 active site 526222006823 dimer interface [polypeptide binding]; other site 526222006824 proteolytic cleavage site; other site 526222006825 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 526222006826 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 526222006827 Phage Tail Protein X; Region: Phage_tail_X; cl02088 526222006828 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 526222006829 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 526222006830 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 526222006831 Phage tail tube protein FII; Region: Phage_tube; pfam04985 526222006832 major tail sheath protein; Provisional; Region: FI; PHA02560 526222006833 VPS10 domain; Region: VPS10; smart00602 526222006834 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 526222006835 Baseplate J-like protein; Region: Baseplate_J; cl01294 526222006836 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 526222006837 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 526222006838 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 526222006839 amidase catalytic site [active] 526222006840 Zn binding residues [ion binding]; other site 526222006841 substrate binding site [chemical binding]; other site 526222006842 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 526222006843 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 526222006844 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 526222006845 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 526222006846 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 526222006847 Dimer interface [polypeptide binding]; other site 526222006848 BRCT sequence motif; other site 526222006849 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 526222006850 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 526222006851 CHC2 zinc finger; Region: zf-CHC2; cl17510 526222006852 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 526222006853 active site 526222006854 metal binding site [ion binding]; metal-binding site 526222006855 interdomain interaction site; other site 526222006856 D5 N terminal like; Region: D5_N; smart00885 526222006857 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 526222006858 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 526222006859 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 526222006860 non-specific DNA binding site [nucleotide binding]; other site 526222006861 salt bridge; other site 526222006862 sequence-specific DNA binding site [nucleotide binding]; other site 526222006863 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 526222006864 non-specific DNA binding site [nucleotide binding]; other site 526222006865 sequence-specific DNA binding site [nucleotide binding]; other site 526222006866 salt bridge; other site 526222006867 Uncharacterized conserved protein [Function unknown]; Region: COG4748 526222006868 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 526222006869 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 526222006870 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 526222006871 active site 526222006872 catalytic residues [active] 526222006873 DNA binding site [nucleotide binding] 526222006874 Int/Topo IB signature motif; other site 526222006875 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 526222006876 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 526222006877 heterodimer interface [polypeptide binding]; other site 526222006878 active site 526222006879 FMN binding site [chemical binding]; other site 526222006880 homodimer interface [polypeptide binding]; other site 526222006881 substrate binding site [chemical binding]; other site 526222006882 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 526222006883 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 526222006884 FAD binding pocket [chemical binding]; other site 526222006885 FAD binding motif [chemical binding]; other site 526222006886 phosphate binding motif [ion binding]; other site 526222006887 beta-alpha-beta structure motif; other site 526222006888 NAD binding pocket [chemical binding]; other site 526222006889 Iron coordination center [ion binding]; other site 526222006890 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 526222006891 Peptidase family U32; Region: Peptidase_U32; pfam01136 526222006892 Peptidase family U32; Region: Peptidase_U32; cl03113 526222006893 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 526222006894 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 526222006895 non-specific DNA binding site [nucleotide binding]; other site 526222006896 salt bridge; other site 526222006897 sequence-specific DNA binding site [nucleotide binding]; other site 526222006898 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 526222006899 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 526222006900 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 526222006901 DctM-like transporters; Region: DctM; pfam06808 526222006902 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 526222006903 allantoate amidohydrolase; Reviewed; Region: PRK09290 526222006904 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 526222006905 active site 526222006906 metal binding site [ion binding]; metal-binding site 526222006907 dimer interface [polypeptide binding]; other site 526222006908 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 526222006909 active site 526222006910 substrate binding pocket [chemical binding]; other site 526222006911 dimer interface [polypeptide binding]; other site 526222006912 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222006913 active site 526222006914 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 526222006915 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 526222006916 dimerization interface [polypeptide binding]; other site 526222006917 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222006918 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222006919 dimer interface [polypeptide binding]; other site 526222006920 putative CheW interface [polypeptide binding]; other site 526222006921 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 526222006922 Transglycosylase; Region: Transgly; pfam00912 526222006923 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 526222006924 Flagellin N-methylase; Region: FliB; cl00497 526222006925 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 526222006926 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 526222006927 active site 526222006928 tetramer interface [polypeptide binding]; other site 526222006929 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222006930 active site 526222006931 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 526222006932 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 526222006933 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 526222006934 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 526222006935 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 526222006936 ATP-grasp domain; Region: ATP-grasp_4; cl17255 526222006937 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 526222006938 IMP binding site; other site 526222006939 dimer interface [polypeptide binding]; other site 526222006940 interdomain contacts; other site 526222006941 partial ornithine binding site; other site 526222006942 FeoA domain; Region: FeoA; pfam04023 526222006943 SlyX; Region: SlyX; pfam04102 526222006944 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 526222006945 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 526222006946 active site 526222006947 HIGH motif; other site 526222006948 KMSKS motif; other site 526222006949 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 526222006950 anticodon binding site; other site 526222006951 tRNA binding surface [nucleotide binding]; other site 526222006952 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 526222006953 dimer interface [polypeptide binding]; other site 526222006954 putative tRNA-binding site [nucleotide binding]; other site 526222006955 PSP1 C-terminal conserved region; Region: PSP1; cl00770 526222006956 Response regulator receiver domain; Region: Response_reg; pfam00072 526222006957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222006958 active site 526222006959 phosphorylation site [posttranslational modification] 526222006960 intermolecular recognition site; other site 526222006961 dimerization interface [polypeptide binding]; other site 526222006962 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 526222006963 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 526222006964 Competence protein; Region: Competence; pfam03772 526222006965 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222006966 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 526222006967 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 526222006968 hinge; other site 526222006969 active site 526222006970 putative transporter; Provisional; Region: PRK11660 526222006971 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 526222006972 Sulfate transporter family; Region: Sulfate_transp; pfam00916 526222006973 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 526222006974 Predicted transcriptional regulator [Transcription]; Region: COG3905 526222006975 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 526222006976 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 526222006977 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 526222006978 G1 box; other site 526222006979 putative GEF interaction site [polypeptide binding]; other site 526222006980 GTP/Mg2+ binding site [chemical binding]; other site 526222006981 Switch I region; other site 526222006982 G2 box; other site 526222006983 G3 box; other site 526222006984 Switch II region; other site 526222006985 G4 box; other site 526222006986 G5 box; other site 526222006987 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 526222006988 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 526222006989 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 526222006990 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 526222006991 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 526222006992 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 526222006993 oligomer interface [polypeptide binding]; other site 526222006994 putative active site [active] 526222006995 metal binding site [ion binding]; metal-binding site 526222006996 selenocysteine synthase; Provisional; Region: PRK04311 526222006997 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 526222006998 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 526222006999 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 526222007000 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222007001 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222007002 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222007003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222007004 active site 526222007005 phosphorylation site [posttranslational modification] 526222007006 intermolecular recognition site; other site 526222007007 dimerization interface [polypeptide binding]; other site 526222007008 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 526222007009 Walker A motif; other site 526222007010 ATP binding site [chemical binding]; other site 526222007011 Walker B motif; other site 526222007012 arginine finger; other site 526222007013 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222007014 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 526222007015 PAS domain; Region: PAS_9; pfam13426 526222007016 putative active site [active] 526222007017 heme pocket [chemical binding]; other site 526222007018 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 526222007019 dimer interface [polypeptide binding]; other site 526222007020 phosphorylation site [posttranslational modification] 526222007021 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 526222007022 ATP binding site [chemical binding]; other site 526222007023 Mg2+ binding site [ion binding]; other site 526222007024 G-X-G motif; other site 526222007025 Response regulator receiver domain; Region: Response_reg; pfam00072 526222007026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222007027 active site 526222007028 phosphorylation site [posttranslational modification] 526222007029 intermolecular recognition site; other site 526222007030 dimerization interface [polypeptide binding]; other site 526222007031 Response regulator receiver domain; Region: Response_reg; pfam00072 526222007032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222007033 active site 526222007034 phosphorylation site [posttranslational modification] 526222007035 intermolecular recognition site; other site 526222007036 dimerization interface [polypeptide binding]; other site 526222007037 Response regulator receiver domain; Region: Response_reg; pfam00072 526222007038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222007039 active site 526222007040 phosphorylation site [posttranslational modification] 526222007041 intermolecular recognition site; other site 526222007042 dimerization interface [polypeptide binding]; other site 526222007043 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 526222007044 dimer interface [polypeptide binding]; other site 526222007045 phosphorylation site [posttranslational modification] 526222007046 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 526222007047 ATP binding site [chemical binding]; other site 526222007048 Mg2+ binding site [ion binding]; other site 526222007049 G-X-G motif; other site 526222007050 Response regulator receiver domain; Region: Response_reg; pfam00072 526222007051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222007052 active site 526222007053 phosphorylation site [posttranslational modification] 526222007054 intermolecular recognition site; other site 526222007055 dimerization interface [polypeptide binding]; other site 526222007056 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222007057 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 526222007058 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 526222007059 putative catalytic residues [active] 526222007060 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 526222007061 arsenical-resistance protein; Region: acr3; TIGR00832 526222007062 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 526222007063 dimerization interface [polypeptide binding]; other site 526222007064 putative DNA binding site [nucleotide binding]; other site 526222007065 putative Zn2+ binding site [ion binding]; other site 526222007066 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 526222007067 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 526222007068 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 526222007069 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 526222007070 catalytic residues [active] 526222007071 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 526222007072 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 526222007073 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 526222007074 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 526222007075 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 526222007076 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 526222007077 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 526222007078 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222007079 Walker A/P-loop; other site 526222007080 ATP binding site [chemical binding]; other site 526222007081 Q-loop/lid; other site 526222007082 ABC transporter signature motif; other site 526222007083 Walker B; other site 526222007084 D-loop; other site 526222007085 H-loop/switch region; other site 526222007086 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 526222007087 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 526222007088 oligomer interface [polypeptide binding]; other site 526222007089 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222007090 PAS fold; Region: PAS_4; pfam08448 526222007091 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222007092 Zn2+ binding site [ion binding]; other site 526222007093 Mg2+ binding site [ion binding]; other site 526222007094 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 526222007095 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222007096 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 526222007097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222007098 active site 526222007099 phosphorylation site [posttranslational modification] 526222007100 intermolecular recognition site; other site 526222007101 dimerization interface [polypeptide binding]; other site 526222007102 LytTr DNA-binding domain; Region: LytTR; smart00850 526222007103 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 526222007104 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 526222007105 GAF domain; Region: GAF_3; pfam13492 526222007106 Histidine kinase; Region: His_kinase; pfam06580 526222007107 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 526222007108 ATP binding site [chemical binding]; other site 526222007109 Mg2+ binding site [ion binding]; other site 526222007110 G-X-G motif; other site 526222007111 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 526222007112 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 526222007113 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 526222007114 Fic family protein [Function unknown]; Region: COG3177 526222007115 Fic/DOC family; Region: Fic; pfam02661 526222007116 Carbon starvation protein CstA; Region: CstA; pfam02554 526222007117 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 526222007118 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 526222007119 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 526222007120 salt bridge; other site 526222007121 non-specific DNA binding site [nucleotide binding]; other site 526222007122 sequence-specific DNA binding site [nucleotide binding]; other site 526222007123 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 526222007124 Uncharacterized protein containing caspase domain [General function prediction only]; Region: COG4249 526222007125 Caspase domain; Region: Peptidase_C14; pfam00656 526222007126 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 526222007127 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 526222007128 core domain interface [polypeptide binding]; other site 526222007129 delta subunit interface [polypeptide binding]; other site 526222007130 epsilon subunit interface [polypeptide binding]; other site 526222007131 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 526222007132 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 526222007133 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 526222007134 Walker A motif; other site 526222007135 ATP binding site [chemical binding]; other site 526222007136 Walker B motif; other site 526222007137 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 526222007138 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 526222007139 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 526222007140 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 526222007141 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 526222007142 ATP synthase A chain; Region: ATP-synt_A; cl00413 526222007143 N-ATPase, AtpR subunit; Region: AtpR; pfam12966 526222007144 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 526222007145 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 526222007146 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 526222007147 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 526222007148 gamma subunit interface [polypeptide binding]; other site 526222007149 LBP interface [polypeptide binding]; other site 526222007150 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 526222007151 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 526222007152 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 526222007153 alpha subunit interaction interface [polypeptide binding]; other site 526222007154 Walker A motif; other site 526222007155 ATP binding site [chemical binding]; other site 526222007156 Walker B motif; other site 526222007157 inhibitor binding site; inhibition site 526222007158 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 526222007159 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 526222007160 active site 526222007161 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 526222007162 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 526222007163 ATP binding site [chemical binding]; other site 526222007164 putative Mg++ binding site [ion binding]; other site 526222007165 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 526222007166 nucleotide binding region [chemical binding]; other site 526222007167 ATP-binding site [chemical binding]; other site 526222007168 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 526222007169 HRDC domain; Region: HRDC; pfam00570 526222007170 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007171 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 526222007172 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 526222007173 Putative cyclase; Region: Cyclase; pfam04199 526222007174 PEGA domain; Region: PEGA; pfam08308 526222007175 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 526222007176 tetramerization interface [polypeptide binding]; other site 526222007177 active site 526222007178 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 526222007179 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 526222007180 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 526222007181 DHH family; Region: DHH; pfam01368 526222007182 DHHA2 domain; Region: DHHA2; pfam02833 526222007183 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 526222007184 active site 526222007185 phosphorylation site [posttranslational modification] 526222007186 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 526222007187 active pocket/dimerization site; other site 526222007188 active site 526222007189 phosphorylation site [posttranslational modification] 526222007190 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 526222007191 AAA domain; Region: AAA_33; pfam13671 526222007192 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 526222007193 active site 526222007194 phosphorylation site [posttranslational modification] 526222007195 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 526222007196 30S subunit binding site; other site 526222007197 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 526222007198 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 526222007199 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 526222007200 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 526222007201 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 526222007202 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 526222007203 Walker A/P-loop; other site 526222007204 ATP binding site [chemical binding]; other site 526222007205 Q-loop/lid; other site 526222007206 ABC transporter signature motif; other site 526222007207 Walker B; other site 526222007208 D-loop; other site 526222007209 H-loop/switch region; other site 526222007210 Bacterial SH3 domain; Region: SH3_3; cl17532 526222007211 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 526222007212 OstA-like protein; Region: OstA; pfam03968 526222007213 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 526222007214 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 526222007215 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 526222007216 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 526222007217 CTP synthetase; Validated; Region: pyrG; PRK05380 526222007218 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 526222007219 Catalytic site [active] 526222007220 active site 526222007221 UTP binding site [chemical binding]; other site 526222007222 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 526222007223 active site 526222007224 putative oxyanion hole; other site 526222007225 catalytic triad [active] 526222007226 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 526222007227 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 526222007228 conserved cys residue [active] 526222007229 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 526222007230 nucleoside/Zn binding site; other site 526222007231 dimer interface [polypeptide binding]; other site 526222007232 catalytic motif [active] 526222007233 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 526222007234 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 526222007235 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 526222007236 ATP binding site [chemical binding]; other site 526222007237 putative Mg++ binding site [ion binding]; other site 526222007238 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 526222007239 nucleotide binding region [chemical binding]; other site 526222007240 ATP-binding site [chemical binding]; other site 526222007241 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 526222007242 Helix-turn-helix domain; Region: HTH_18; pfam12833 526222007243 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222007244 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 526222007245 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 526222007246 dimer interface [polypeptide binding]; other site 526222007247 active site 526222007248 metal binding site [ion binding]; metal-binding site 526222007249 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 526222007250 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222007251 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222007252 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 526222007253 active site residue [active] 526222007254 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 526222007255 PAS domain; Region: PAS_9; pfam13426 526222007256 putative active site [active] 526222007257 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 526222007258 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 526222007259 Transcriptional regulators [Transcription]; Region: MarR; COG1846 526222007260 MarR family; Region: MarR_2; pfam12802 526222007261 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 526222007262 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 526222007263 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 526222007264 4Fe-4S binding domain; Region: Fer4; pfam00037 526222007265 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 526222007266 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222007267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222007268 conserved hypothetical protein; Region: TIGR02285 526222007269 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 526222007270 pentamer interface [polypeptide binding]; other site 526222007271 dodecaamer interface [polypeptide binding]; other site 526222007272 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 526222007273 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 526222007274 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007275 substrate binding pocket [chemical binding]; other site 526222007276 membrane-bound complex binding site; other site 526222007277 hinge residues; other site 526222007278 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 526222007279 intracellular protease, PfpI family; Region: PfpI; TIGR01382 526222007280 conserved cys residue [active] 526222007281 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 526222007282 Ca2+ binding site [ion binding]; other site 526222007283 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222007284 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 526222007285 Walker A/P-loop; other site 526222007286 ATP binding site [chemical binding]; other site 526222007287 Q-loop/lid; other site 526222007288 ABC transporter signature motif; other site 526222007289 Walker B; other site 526222007290 D-loop; other site 526222007291 H-loop/switch region; other site 526222007292 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222007293 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222007294 dimer interface [polypeptide binding]; other site 526222007295 conserved gate region; other site 526222007296 putative PBP binding loops; other site 526222007297 ABC-ATPase subunit interface; other site 526222007298 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 526222007299 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 526222007300 substrate binding pocket [chemical binding]; other site 526222007301 membrane-bound complex binding site; other site 526222007302 hinge residues; other site 526222007303 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 526222007304 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 526222007305 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 526222007306 PAS domain; Region: PAS; smart00091 526222007307 PAS domain; Region: PAS_9; pfam13426 526222007308 putative active site [active] 526222007309 heme pocket [chemical binding]; other site 526222007310 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007311 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007312 dimer interface [polypeptide binding]; other site 526222007313 putative CheW interface [polypeptide binding]; other site 526222007314 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 526222007315 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 526222007316 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 526222007317 active site 526222007318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 526222007319 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 526222007320 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 526222007321 Chloramphenicol acetyltransferase; Region: CAT; cl02008 526222007322 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 526222007323 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 526222007324 GIY-YIG motif/motif A; other site 526222007325 putative active site [active] 526222007326 putative metal binding site [ion binding]; other site 526222007327 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 526222007328 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 526222007329 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 526222007330 ABC transporter; Region: ABC_tran_2; pfam12848 526222007331 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 526222007332 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 526222007333 active site 526222007334 8-oxo-dGMP binding site [chemical binding]; other site 526222007335 nudix motif; other site 526222007336 metal binding site [ion binding]; metal-binding site 526222007337 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 526222007338 FAD binding site [chemical binding]; other site 526222007339 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 526222007340 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 526222007341 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 526222007342 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 526222007343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222007344 catalytic residue [active] 526222007345 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 526222007346 active site 526222007347 SAM binding site [chemical binding]; other site 526222007348 homodimer interface [polypeptide binding]; other site 526222007349 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 526222007350 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 526222007351 intersubunit interface [polypeptide binding]; other site 526222007352 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 526222007353 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 526222007354 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 526222007355 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 526222007356 ABC-ATPase subunit interface; other site 526222007357 dimer interface [polypeptide binding]; other site 526222007358 putative PBP binding regions; other site 526222007359 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 526222007360 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 526222007361 active site 526222007362 C-terminal domain interface [polypeptide binding]; other site 526222007363 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 526222007364 active site 526222007365 N-terminal domain interface [polypeptide binding]; other site 526222007366 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 526222007367 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 526222007368 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 526222007369 Glucose inhibited division protein A; Region: GIDA; pfam01134 526222007370 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 526222007371 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 526222007372 Walker A/P-loop; other site 526222007373 ATP binding site [chemical binding]; other site 526222007374 Q-loop/lid; other site 526222007375 ABC transporter signature motif; other site 526222007376 Walker B; other site 526222007377 D-loop; other site 526222007378 H-loop/switch region; other site 526222007379 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 526222007380 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 526222007381 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 526222007382 Walker A/P-loop; other site 526222007383 ATP binding site [chemical binding]; other site 526222007384 Q-loop/lid; other site 526222007385 ABC transporter signature motif; other site 526222007386 Walker B; other site 526222007387 D-loop; other site 526222007388 H-loop/switch region; other site 526222007389 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 526222007390 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 526222007391 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 526222007392 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 526222007393 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 526222007394 Low molecular weight phosphatase family; Region: LMWPc; cd00115 526222007395 active site 526222007396 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 526222007397 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 526222007398 Ligand Binding Site [chemical binding]; other site 526222007399 GTPase RsgA; Reviewed; Region: PRK01889 526222007400 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 526222007401 GTPase/Zn-binding domain interface [polypeptide binding]; other site 526222007402 GTP/Mg2+ binding site [chemical binding]; other site 526222007403 G4 box; other site 526222007404 G5 box; other site 526222007405 G1 box; other site 526222007406 Switch I region; other site 526222007407 G2 box; other site 526222007408 G3 box; other site 526222007409 Switch II region; other site 526222007410 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 526222007411 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 526222007412 TIGR01777 family protein; Region: yfcH 526222007413 putative NAD(P) binding site [chemical binding]; other site 526222007414 putative active site [active] 526222007415 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 526222007416 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007417 substrate binding pocket [chemical binding]; other site 526222007418 membrane-bound complex binding site; other site 526222007419 hinge residues; other site 526222007420 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222007421 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 526222007422 dimer interface [polypeptide binding]; other site 526222007423 phosphorylation site [posttranslational modification] 526222007424 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 526222007425 ATP binding site [chemical binding]; other site 526222007426 Mg2+ binding site [ion binding]; other site 526222007427 G-X-G motif; other site 526222007428 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222007429 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222007430 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 526222007431 Ligand Binding Site [chemical binding]; other site 526222007432 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 526222007433 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 526222007434 Catalytic site [active] 526222007435 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 526222007436 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 526222007437 active site 526222007438 DNA binding site [nucleotide binding] 526222007439 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 526222007440 TPR repeat; Region: TPR_11; pfam13414 526222007441 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 526222007442 TPR motif; other site 526222007443 binding surface 526222007444 TPR repeat; Region: TPR_11; pfam13414 526222007445 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 526222007446 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 526222007447 ATP-grasp domain; Region: ATP-grasp_4; cl17255 526222007448 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 526222007449 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 526222007450 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 526222007451 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 526222007452 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 526222007453 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 526222007454 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 526222007455 Uncharacterized conserved protein [Function unknown]; Region: COG3379 526222007456 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 526222007457 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 526222007458 Part of AAA domain; Region: AAA_19; pfam13245 526222007459 Family description; Region: UvrD_C_2; pfam13538 526222007460 thiamine monophosphate kinase; Provisional; Region: PRK05731 526222007461 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 526222007462 ATP binding site [chemical binding]; other site 526222007463 dimerization interface [polypeptide binding]; other site 526222007464 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 526222007465 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 526222007466 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 526222007467 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 526222007468 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 526222007469 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222007470 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222007471 HlyD family secretion protein; Region: HlyD; pfam00529 526222007472 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222007473 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222007474 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 526222007475 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 526222007476 Walker A/P-loop; other site 526222007477 ATP binding site [chemical binding]; other site 526222007478 Q-loop/lid; other site 526222007479 ABC transporter signature motif; other site 526222007480 Walker B; other site 526222007481 D-loop; other site 526222007482 H-loop/switch region; other site 526222007483 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 526222007484 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 526222007485 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 526222007486 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 526222007487 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222007488 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222007489 hypothetical protein; Region: PHA00670 526222007490 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 526222007491 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 526222007492 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 526222007493 FecR protein; Region: FecR; pfam04773 526222007494 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222007495 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 526222007496 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 526222007497 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007498 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007499 dimer interface [polypeptide binding]; other site 526222007500 putative CheW interface [polypeptide binding]; other site 526222007501 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR_like; cd08242 526222007502 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 526222007503 putative NAD(P) binding site [chemical binding]; other site 526222007504 catalytic Zn binding site [ion binding]; other site 526222007505 structural Zn binding site [ion binding]; other site 526222007506 HAMP domain; Region: HAMP; pfam00672 526222007507 dimerization interface [polypeptide binding]; other site 526222007508 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 526222007509 PAS domain; Region: PAS_9; pfam13426 526222007510 putative active site [active] 526222007511 heme pocket [chemical binding]; other site 526222007512 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007513 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007514 dimer interface [polypeptide binding]; other site 526222007515 putative CheW interface [polypeptide binding]; other site 526222007516 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 526222007517 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 526222007518 putative NADP binding site [chemical binding]; other site 526222007519 putative substrate binding site [chemical binding]; other site 526222007520 active site 526222007521 YfbU domain; Region: YfbU; cl01137 526222007522 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 526222007523 Carbon starvation protein CstA; Region: CstA; pfam02554 526222007524 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 526222007525 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 526222007526 YCII-related domain; Region: YCII; cl00999 526222007527 Transcriptional regulators [Transcription]; Region: MarR; COG1846 526222007528 MarR family; Region: MarR_2; pfam12802 526222007529 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 526222007530 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 526222007531 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 526222007532 PAS fold; Region: PAS_4; pfam08448 526222007533 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 526222007534 putative active site [active] 526222007535 heme pocket [chemical binding]; other site 526222007536 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222007537 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 526222007538 dimer interface [polypeptide binding]; other site 526222007539 phosphorylation site [posttranslational modification] 526222007540 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 526222007541 ATP binding site [chemical binding]; other site 526222007542 Mg2+ binding site [ion binding]; other site 526222007543 G-X-G motif; other site 526222007544 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222007545 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222007546 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 526222007547 TPR motif; other site 526222007548 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222007549 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 526222007550 binding surface 526222007551 TPR motif; other site 526222007552 Stage II sporulation protein; Region: SpoIID; pfam08486 526222007553 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 526222007554 Right handed beta helix region; Region: Beta_helix; pfam13229 526222007555 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 526222007556 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 526222007557 binding surface 526222007558 TPR motif; other site 526222007559 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 526222007560 LPP20 lipoprotein; Region: LPP20; cl15824 526222007561 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 526222007562 TPR repeat; Region: TPR_11; pfam13414 526222007563 binding surface 526222007564 TPR motif; other site 526222007565 S-layer homology domain; Region: SLH; pfam00395 526222007566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 526222007567 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 526222007568 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 526222007569 anti sigma factor interaction site; other site 526222007570 regulatory phosphorylation site [posttranslational modification]; other site 526222007571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 526222007572 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 526222007573 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 526222007574 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 526222007575 Hemerythrin; Region: Hemerythrin; cd12107 526222007576 Fe binding site [ion binding]; other site 526222007577 Cache domain; Region: Cache_1; pfam02743 526222007578 GAF domain; Region: GAF; cl17456 526222007579 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222007580 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222007581 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 526222007582 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 526222007583 homodimer interaction site [polypeptide binding]; other site 526222007584 cofactor binding site; other site 526222007585 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 526222007586 rRNA binding site [nucleotide binding]; other site 526222007587 predicted 30S ribosome binding site; other site 526222007588 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 526222007589 ketol-acid reductoisomerase; Provisional; Region: PRK05479 526222007590 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 526222007591 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 526222007592 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 526222007593 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 526222007594 putative valine binding site [chemical binding]; other site 526222007595 dimer interface [polypeptide binding]; other site 526222007596 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 526222007597 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 526222007598 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 526222007599 PYR/PP interface [polypeptide binding]; other site 526222007600 dimer interface [polypeptide binding]; other site 526222007601 TPP binding site [chemical binding]; other site 526222007602 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 526222007603 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 526222007604 TPP-binding site [chemical binding]; other site 526222007605 dimer interface [polypeptide binding]; other site 526222007606 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 526222007607 DivIVA protein; Region: DivIVA; pfam05103 526222007608 DivIVA domain; Region: DivI1A_domain; TIGR03544 526222007609 YGGT family; Region: YGGT; pfam02325 526222007610 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 526222007611 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 526222007612 active site 526222007613 motif I; other site 526222007614 motif II; other site 526222007615 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 526222007616 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 526222007617 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 526222007618 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 526222007619 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 526222007620 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 526222007621 active site 526222007622 (T/H)XGH motif; other site 526222007623 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 526222007624 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 526222007625 S-adenosylmethionine binding site [chemical binding]; other site 526222007626 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 526222007627 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 526222007628 Beta-Casp domain; Region: Beta-Casp; smart01027 526222007629 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 526222007630 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 526222007631 EamA-like transporter family; Region: EamA; pfam00892 526222007632 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 526222007633 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 526222007634 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 526222007635 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 526222007636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222007637 dimer interface [polypeptide binding]; other site 526222007638 conserved gate region; other site 526222007639 putative PBP binding loops; other site 526222007640 ABC-ATPase subunit interface; other site 526222007641 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 526222007642 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222007643 Walker A/P-loop; other site 526222007644 ATP binding site [chemical binding]; other site 526222007645 Q-loop/lid; other site 526222007646 ABC transporter signature motif; other site 526222007647 Walker B; other site 526222007648 D-loop; other site 526222007649 H-loop/switch region; other site 526222007650 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 526222007651 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 526222007652 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 526222007653 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 526222007654 Walker A motif; other site 526222007655 ATP binding site [chemical binding]; other site 526222007656 Walker B motif; other site 526222007657 arginine finger; other site 526222007658 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 526222007659 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222007660 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 526222007661 Chain length determinant protein; Region: Wzz; cl15801 526222007662 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 526222007663 Chain length determinant protein; Region: Wzz; cl15801 526222007664 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 526222007665 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 526222007666 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 526222007667 SLBB domain; Region: SLBB; pfam10531 526222007668 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 526222007669 Bacterial sugar transferase; Region: Bac_transf; pfam02397 526222007670 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 526222007671 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 526222007672 TPR motif; other site 526222007673 binding surface 526222007674 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 526222007675 TPR motif; other site 526222007676 binding surface 526222007677 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 526222007678 TPR motif; other site 526222007679 binding surface 526222007680 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222007681 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 526222007682 binding surface 526222007683 TPR motif; other site 526222007684 TPR repeat; Region: TPR_11; pfam13414 526222007685 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 526222007686 TPR motif; other site 526222007687 binding surface 526222007688 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 526222007689 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 526222007690 binding surface 526222007691 TPR motif; other site 526222007692 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 526222007693 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 526222007694 binding surface 526222007695 TPR motif; other site 526222007696 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 526222007697 binding surface 526222007698 TPR motif; other site 526222007699 exosortase D, VPLPA-CTERM-specific; Region: exosort_VPLPA; TIGR04152 526222007700 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 526222007701 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 526222007702 O-Antigen ligase; Region: Wzy_C; cl04850 526222007703 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222007704 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 526222007705 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 526222007706 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 526222007707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222007708 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222007709 metal binding site [ion binding]; metal-binding site 526222007710 active site 526222007711 I-site; other site 526222007712 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 526222007713 AAA domain; Region: AAA_30; pfam13604 526222007714 Family description; Region: UvrD_C_2; pfam13538 526222007715 recombination protein RecR; Reviewed; Region: recR; PRK00076 526222007716 RecR protein; Region: RecR; pfam02132 526222007717 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 526222007718 active site 526222007719 metal binding site [ion binding]; metal-binding site 526222007720 hypothetical protein; Validated; Region: PRK00153 526222007721 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 526222007722 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 526222007723 Walker A motif; other site 526222007724 ATP binding site [chemical binding]; other site 526222007725 Walker B motif; other site 526222007726 arginine finger; other site 526222007727 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 526222007728 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 526222007729 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 526222007730 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 526222007731 homodimer interface [polypeptide binding]; other site 526222007732 substrate-cofactor binding pocket; other site 526222007733 catalytic residue [active] 526222007734 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 526222007735 aminotransferase; Validated; Region: PRK08175 526222007736 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 526222007737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222007738 homodimer interface [polypeptide binding]; other site 526222007739 catalytic residue [active] 526222007740 homoserine dehydrogenase; Provisional; Region: PRK06349 526222007741 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 526222007742 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 526222007743 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 526222007744 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 526222007745 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 526222007746 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 526222007747 active site 526222007748 active site 526222007749 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 526222007750 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 526222007751 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 526222007752 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222007753 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222007754 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222007755 heme-binding residues [chemical binding]; other site 526222007756 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 526222007757 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 526222007758 Walker A/P-loop; other site 526222007759 ATP binding site [chemical binding]; other site 526222007760 Q-loop/lid; other site 526222007761 ABC transporter signature motif; other site 526222007762 Walker B; other site 526222007763 D-loop; other site 526222007764 H-loop/switch region; other site 526222007765 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 526222007766 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 526222007767 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 526222007768 TM-ABC transporter signature motif; other site 526222007769 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 526222007770 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 526222007771 TM-ABC transporter signature motif; other site 526222007772 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 526222007773 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 526222007774 putative ligand binding site [chemical binding]; other site 526222007775 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222007776 active site 526222007777 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222007778 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222007779 metal binding site [ion binding]; metal-binding site 526222007780 active site 526222007781 I-site; other site 526222007782 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 526222007783 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 526222007784 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222007785 Zn2+ binding site [ion binding]; other site 526222007786 Mg2+ binding site [ion binding]; other site 526222007787 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 526222007788 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222007789 Zn2+ binding site [ion binding]; other site 526222007790 Mg2+ binding site [ion binding]; other site 526222007791 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 526222007792 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 526222007793 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007794 substrate binding pocket [chemical binding]; other site 526222007795 membrane-bound complex binding site; other site 526222007796 hinge residues; other site 526222007797 mercuric reductase; Validated; Region: PRK06370 526222007798 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222007799 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222007800 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222007801 Glucokinase; Region: Glucokinase; cl17310 526222007802 glucokinase, proteobacterial type; Region: glk; TIGR00749 526222007803 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 526222007804 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222007805 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222007806 ligand binding site [chemical binding]; other site 526222007807 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 526222007808 Maf-like protein; Region: Maf; pfam02545 526222007809 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 526222007810 active site 526222007811 dimer interface [polypeptide binding]; other site 526222007812 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 526222007813 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222007814 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 526222007815 acyl-activating enzyme (AAE) consensus motif; other site 526222007816 acyl-activating enzyme (AAE) consensus motif; other site 526222007817 putative AMP binding site [chemical binding]; other site 526222007818 putative active site [active] 526222007819 putative CoA binding site [chemical binding]; other site 526222007820 Helix-turn-helix domain; Region: HTH_18; pfam12833 526222007821 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 526222007822 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_15; cd07264 526222007823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222007824 Coenzyme A binding pocket [chemical binding]; other site 526222007825 CDGSH-type zinc finger. Function unknown; Region: ZnF_CDGSH; smart00704 526222007826 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 526222007827 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 526222007828 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 526222007829 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 526222007830 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 526222007831 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007832 substrate binding pocket [chemical binding]; other site 526222007833 membrane-bound complex binding site; other site 526222007834 hinge residues; other site 526222007835 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 526222007836 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 526222007837 tetramer interfaces [polypeptide binding]; other site 526222007838 binuclear metal-binding site [ion binding]; other site 526222007839 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 526222007840 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222007841 ligand binding site [chemical binding]; other site 526222007842 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 526222007843 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 526222007844 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 526222007845 TolA protein; Region: tolA_full; TIGR02794 526222007846 TonB C terminal; Region: TonB_2; pfam13103 526222007847 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 526222007848 TolR protein; Region: tolR; TIGR02801 526222007849 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222007850 NAD-dependent deacetylase; Provisional; Region: PRK00481 526222007851 SIR2 family 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-fam; cd01407 526222007852 NAD+ binding site [chemical binding]; other site 526222007853 substrate binding site [chemical binding]; other site 526222007854 Zn binding site [ion binding]; other site 526222007855 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 526222007856 active site 526222007857 hypothetical protein; Provisional; Region: PRK06361 526222007858 Bifunctional nuclease; Region: DNase-RNase; pfam02577 526222007859 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 526222007860 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 526222007861 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 526222007862 FeS/SAM binding site; other site 526222007863 TRAM domain; Region: TRAM; cl01282 526222007864 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 526222007865 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 526222007866 phosphoglyceromutase; Provisional; Region: PRK05434 526222007867 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 526222007868 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 526222007869 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222007870 acyl-activating enzyme (AAE) consensus motif; other site 526222007871 AMP binding site [chemical binding]; other site 526222007872 active site 526222007873 CoA binding site [chemical binding]; other site 526222007874 ACT domain-containing protein [General function prediction only]; Region: COG4747 526222007875 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 526222007876 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 526222007877 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 526222007878 hypothetical protein; Reviewed; Region: PRK09588 526222007879 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 526222007880 putative binding surface; other site 526222007881 active site 526222007882 K+ potassium transporter; Region: K_trans; pfam02705 526222007883 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 526222007884 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 526222007885 AAA domain; Region: AAA_33; pfam13671 526222007886 active site 526222007887 Phosphotransferase enzyme family; Region: APH; pfam01636 526222007888 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222007889 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 526222007890 substrate binding site [chemical binding]; other site 526222007891 ATP binding site [chemical binding]; other site 526222007892 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 526222007893 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 526222007894 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 526222007895 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 526222007896 minor groove reading motif; other site 526222007897 helix-hairpin-helix signature motif; other site 526222007898 substrate binding pocket [chemical binding]; other site 526222007899 active site 526222007900 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 526222007901 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 526222007902 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 526222007903 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 526222007904 putative active site [active] 526222007905 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 526222007906 P-loop; other site 526222007907 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222007908 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 526222007909 ACS interaction site; other site 526222007910 CODH interaction site; other site 526222007911 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 526222007912 cubane metal cluster (B-cluster) [ion binding]; other site 526222007913 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 526222007914 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222007915 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 526222007916 ligand binding site [chemical binding]; other site 526222007917 flexible hinge region; other site 526222007918 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 526222007919 putative switch regulator; other site 526222007920 non-specific DNA interactions [nucleotide binding]; other site 526222007921 DNA binding site [nucleotide binding] 526222007922 sequence specific DNA binding site [nucleotide binding]; other site 526222007923 putative cAMP binding site [chemical binding]; other site 526222007924 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 526222007925 AsmA family; Region: AsmA; pfam05170 526222007926 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 526222007927 Protein of unknown function DUF89; Region: DUF89; cl15397 526222007928 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 526222007929 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 526222007930 P loop nucleotide binding; other site 526222007931 switch II; other site 526222007932 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 526222007933 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 526222007934 P loop nucleotide binding; other site 526222007935 switch II; other site 526222007936 CGGC domain; Region: CGGC; cl02356 526222007937 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 526222007938 conserved hypothetical protein; Region: TIGR02285 526222007939 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007940 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 526222007941 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 526222007942 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 526222007943 active site 526222007944 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 526222007945 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 526222007946 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 526222007947 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 526222007948 trimer interface [polypeptide binding]; other site 526222007949 active site 526222007950 UDP-GlcNAc binding site [chemical binding]; other site 526222007951 lipid binding site [chemical binding]; lipid-binding site 526222007952 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 526222007953 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 526222007954 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 526222007955 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 526222007956 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 526222007957 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 526222007958 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 526222007959 Surface antigen; Region: Bac_surface_Ag; pfam01103 526222007960 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222007961 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 526222007962 Walker A/P-loop; other site 526222007963 ATP binding site [chemical binding]; other site 526222007964 Q-loop/lid; other site 526222007965 ABC transporter signature motif; other site 526222007966 Walker B; other site 526222007967 D-loop; other site 526222007968 H-loop/switch region; other site 526222007969 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 526222007970 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222007971 FtsX-like permease family; Region: FtsX; pfam02687 526222007972 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 526222007973 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 526222007974 dimer interface [polypeptide binding]; other site 526222007975 putative anticodon binding site; other site 526222007976 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 526222007977 motif 1; other site 526222007978 active site 526222007979 motif 2; other site 526222007980 motif 3; other site 526222007981 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007982 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 526222007983 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 526222007984 domain interfaces; other site 526222007985 active site 526222007986 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 526222007987 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 526222007988 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 526222007989 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 526222007990 PAS domain S-box; Region: sensory_box; TIGR00229 526222007991 PAS domain; Region: PAS; smart00091 526222007992 putative active site [active] 526222007993 heme pocket [chemical binding]; other site 526222007994 PAS domain S-box; Region: sensory_box; TIGR00229 526222007995 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 526222007996 putative active site [active] 526222007997 heme pocket [chemical binding]; other site 526222007998 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 526222007999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222008000 dimer interface [polypeptide binding]; other site 526222008001 phosphorylation site [posttranslational modification] 526222008002 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 526222008003 ATP binding site [chemical binding]; other site 526222008004 Mg2+ binding site [ion binding]; other site 526222008005 G-X-G motif; other site 526222008006 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222008007 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 526222008008 putative active site [active] 526222008009 metal binding site [ion binding]; metal-binding site 526222008010 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 526222008011 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 526222008012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222008013 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 526222008014 putative dimerization interface [polypeptide binding]; other site 526222008015 Lysine efflux permease [General function prediction only]; Region: COG1279 526222008016 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 526222008017 AzlC protein; Region: AzlC; cl00570 526222008018 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 526222008019 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 526222008020 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 526222008021 regulatory protein interface [polypeptide binding]; other site 526222008022 active site 526222008023 regulatory phosphorylation site [posttranslational modification]; other site 526222008024 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 526222008025 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 526222008026 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 526222008027 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 526222008028 DAK2 domain; Region: Dak2; cl03685 526222008029 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 526222008030 Dak1 domain; Region: Dak1; pfam02733 526222008031 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 526222008032 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 526222008033 DNA binding site [nucleotide binding] 526222008034 domain linker motif; other site 526222008035 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 526222008036 dimerization interface [polypeptide binding]; other site 526222008037 ligand binding site [chemical binding]; other site 526222008038 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222008039 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 526222008040 substrate binding site [chemical binding]; other site 526222008041 dimer interface [polypeptide binding]; other site 526222008042 ATP binding site [chemical binding]; other site 526222008043 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 526222008044 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 526222008045 ligand binding site [chemical binding]; other site 526222008046 dimerization interface [polypeptide binding]; other site 526222008047 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 526222008048 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 526222008049 TM-ABC transporter signature motif; other site 526222008050 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 526222008051 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 526222008052 Walker A/P-loop; other site 526222008053 ATP binding site [chemical binding]; other site 526222008054 Q-loop/lid; other site 526222008055 ABC transporter signature motif; other site 526222008056 Walker B; other site 526222008057 D-loop; other site 526222008058 H-loop/switch region; other site 526222008059 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 526222008060 D-ribose pyranase; Provisional; Region: PRK11797 526222008061 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 526222008062 Ligand binding site; other site 526222008063 Putative Catalytic site; other site 526222008064 DXD motif; other site 526222008065 Uncharacterized conserved protein [Function unknown]; Region: COG0398 526222008066 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 526222008067 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 526222008068 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 526222008069 Walker A motif; other site 526222008070 ATP binding site [chemical binding]; other site 526222008071 Walker B motif; other site 526222008072 arginine finger; other site 526222008073 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 526222008074 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 526222008075 Predicted membrane protein [Function unknown]; Region: COG1971 526222008076 Domain of unknown function DUF; Region: DUF204; pfam02659 526222008077 Domain of unknown function DUF; Region: DUF204; pfam02659 526222008078 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 526222008079 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 526222008080 putative binding surface; other site 526222008081 active site 526222008082 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 526222008083 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 526222008084 dimerization interface [polypeptide binding]; other site 526222008085 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008086 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008087 dimer interface [polypeptide binding]; other site 526222008088 putative CheW interface [polypeptide binding]; other site 526222008089 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 526222008090 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 526222008091 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 526222008092 dimerization interface [polypeptide binding]; other site 526222008093 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008094 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008095 dimer interface [polypeptide binding]; other site 526222008096 putative CheW interface [polypeptide binding]; other site 526222008097 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 526222008098 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 526222008099 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222008100 Cysteine-rich domain; Region: CCG; pfam02754 526222008101 Cysteine-rich domain; Region: CCG; pfam02754 526222008102 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 526222008103 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 526222008104 propionate/acetate kinase; Provisional; Region: PRK12379 526222008105 phosphate acetyltransferase; Reviewed; Region: PRK05632 526222008106 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 526222008107 DRTGG domain; Region: DRTGG; pfam07085 526222008108 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 526222008109 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222008110 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 526222008111 Cysteine-rich domain; Region: CCG; pfam02754 526222008112 Cysteine-rich domain; Region: CCG; pfam02754 526222008113 FAD binding domain; Region: FAD_binding_4; pfam01565 526222008114 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 526222008115 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 526222008116 L-lactate permease; Region: Lactate_perm; cl00701 526222008117 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222008118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008119 active site 526222008120 phosphorylation site [posttranslational modification] 526222008121 intermolecular recognition site; other site 526222008122 dimerization interface [polypeptide binding]; other site 526222008123 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 526222008124 Walker A motif; other site 526222008125 ATP binding site [chemical binding]; other site 526222008126 Walker B motif; other site 526222008127 arginine finger; other site 526222008128 PAS fold; Region: PAS_4; pfam08448 526222008129 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 526222008130 putative active site [active] 526222008131 heme pocket [chemical binding]; other site 526222008132 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 526222008133 dimer interface [polypeptide binding]; other site 526222008134 phosphorylation site [posttranslational modification] 526222008135 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 526222008136 ATP binding site [chemical binding]; other site 526222008137 Mg2+ binding site [ion binding]; other site 526222008138 G-X-G motif; other site 526222008139 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008141 active site 526222008142 phosphorylation site [posttranslational modification] 526222008143 intermolecular recognition site; other site 526222008144 dimerization interface [polypeptide binding]; other site 526222008145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 526222008146 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 526222008147 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 526222008148 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 526222008149 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 526222008150 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 526222008151 metal binding site [ion binding]; metal-binding site 526222008152 putative dimer interface [polypeptide binding]; other site 526222008153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008154 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008155 active site 526222008156 phosphorylation site [posttranslational modification] 526222008157 intermolecular recognition site; other site 526222008158 dimerization interface [polypeptide binding]; other site 526222008159 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 526222008160 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222008161 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222008162 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 526222008163 active site residue [active] 526222008164 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 526222008165 trimer interface [polypeptide binding]; other site 526222008166 dimer interface [polypeptide binding]; other site 526222008167 putative active site [active] 526222008168 chaperone protein DnaJ; Provisional; Region: PRK14301 526222008169 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 526222008170 HSP70 interaction site [polypeptide binding]; other site 526222008171 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 526222008172 substrate binding site [polypeptide binding]; other site 526222008173 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 526222008174 Zn binding sites [ion binding]; other site 526222008175 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 526222008176 dimer interface [polypeptide binding]; other site 526222008177 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 526222008178 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 526222008179 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 526222008180 Ligand Binding Site [chemical binding]; other site 526222008181 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 526222008182 Peptidase family M23; Region: Peptidase_M23; pfam01551 526222008183 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 526222008184 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 526222008185 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 526222008186 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 526222008187 FHIPEP family; Region: FHIPEP; pfam00771 526222008188 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 526222008189 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 526222008190 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 526222008191 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 526222008192 P-loop; other site 526222008193 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 526222008194 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222008195 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 526222008196 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 526222008197 DNA binding residues [nucleotide binding] 526222008198 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 526222008199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008200 active site 526222008201 phosphorylation site [posttranslational modification] 526222008202 intermolecular recognition site; other site 526222008203 dimerization interface [polypeptide binding]; other site 526222008204 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 526222008205 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 526222008206 HAMP domain; Region: HAMP; pfam00672 526222008207 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008208 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008209 dimer interface [polypeptide binding]; other site 526222008210 putative CheW interface [polypeptide binding]; other site 526222008211 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 526222008212 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 526222008213 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 526222008214 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 526222008215 S-adenosylmethionine binding site [chemical binding]; other site 526222008216 peptide chain release factor 1; Validated; Region: prfA; PRK00591 526222008217 This domain is found in peptide chain release factors; Region: PCRF; smart00937 526222008218 RF-1 domain; Region: RF-1; pfam00472 526222008219 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 526222008220 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 526222008221 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 526222008222 DsrC like protein; Region: DsrC; pfam04358 526222008223 putative methanogenesis marker protein 1; Region: methan_mark_1; TIGR03266 526222008224 YcaO-like family; Region: YcaO; pfam02624 526222008225 Ferredoxin-dependent bilin reductase; Region: Fe_bilin_red; cl07930 526222008226 TPR repeat; Region: TPR_11; pfam13414 526222008227 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 526222008228 TPR motif; other site 526222008229 binding surface 526222008230 Putative methyltransferase; Region: Methyltransf_16; pfam10294 526222008231 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 526222008232 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 526222008233 Domain of unknown function (DUF814); Region: DUF814; pfam05670 526222008234 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 526222008235 TPR motif; other site 526222008236 binding surface 526222008237 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; cl00399 526222008238 MoaE homodimer interface [polypeptide binding]; other site 526222008239 MoaD interaction [polypeptide binding]; other site 526222008240 active site residues [active] 526222008241 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 526222008242 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 526222008243 active site 526222008244 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222008245 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 526222008246 Transglycosylase SLT domain; Region: SLT_2; pfam13406 526222008247 murein hydrolase B; Provisional; Region: PRK10760; cl17906 526222008248 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 526222008249 N-acetyl-D-glucosamine binding site [chemical binding]; other site 526222008250 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 526222008251 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 526222008252 MPT binding site; other site 526222008253 trimer interface [polypeptide binding]; other site 526222008254 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 526222008255 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 526222008256 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 526222008257 substrate binding site; other site 526222008258 tetramer interface; other site 526222008259 PilZ domain; Region: PilZ; pfam07238 526222008260 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 526222008261 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 526222008262 putative ligand binding site [chemical binding]; other site 526222008263 putative NAD binding site [chemical binding]; other site 526222008264 catalytic site [active] 526222008265 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222008266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008267 active site 526222008268 phosphorylation site [posttranslational modification] 526222008269 intermolecular recognition site; other site 526222008270 dimerization interface [polypeptide binding]; other site 526222008271 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 526222008272 active site 526222008273 catalytic triad [active] 526222008274 oxyanion hole [active] 526222008275 switch loop; other site 526222008276 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 526222008277 active site 526222008278 nucleophile elbow; other site 526222008279 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 526222008280 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222008281 Uncharacterized conserved protein [Function unknown]; Region: COG0398 526222008282 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 526222008283 YcaO-like family; Region: YcaO; pfam02624 526222008284 Cache domain; Region: Cache_1; pfam02743 526222008285 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 526222008286 dimerization interface [polypeptide binding]; other site 526222008287 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 526222008288 PAS domain; Region: PAS_9; pfam13426 526222008289 putative active site [active] 526222008290 heme pocket [chemical binding]; other site 526222008291 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008292 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008293 dimer interface [polypeptide binding]; other site 526222008294 putative CheW interface [polypeptide binding]; other site 526222008295 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 526222008296 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222008297 putative active site [active] 526222008298 heme pocket [chemical binding]; other site 526222008299 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 526222008300 putative active site [active] 526222008301 heme pocket [chemical binding]; other site 526222008302 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 526222008303 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 526222008304 DNA binding residues [nucleotide binding] 526222008305 dimerization interface [polypeptide binding]; other site 526222008306 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 526222008307 dimer interface [polypeptide binding]; other site 526222008308 phosphorylation site [posttranslational modification] 526222008309 PAS domain; Region: PAS_8; pfam13188 526222008310 PAS domain S-box; Region: sensory_box; TIGR00229 526222008311 PAS domain; Region: PAS_9; pfam13426 526222008312 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 526222008313 dimer interface [polypeptide binding]; other site 526222008314 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 526222008315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 526222008316 Protein of unknown function (DUF997); Region: DUF997; pfam06196 526222008317 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 526222008318 Na binding site [ion binding]; other site 526222008319 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 526222008320 PhoU domain; Region: PhoU; pfam01895 526222008321 PhoU domain; Region: PhoU; pfam01895 526222008322 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 526222008323 thiS-thiF/thiG interaction site; other site 526222008324 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 526222008325 ThiS interaction site; other site 526222008326 putative active site [active] 526222008327 tetramer interface [polypeptide binding]; other site 526222008328 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 526222008329 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 526222008330 FeS/SAM binding site; other site 526222008331 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 526222008332 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 526222008333 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 526222008334 ATP binding site [chemical binding]; other site 526222008335 substrate interface [chemical binding]; other site 526222008336 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 526222008337 active site 526222008338 thiamine phosphate binding site [chemical binding]; other site 526222008339 pyrophosphate binding site [ion binding]; other site 526222008340 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222008341 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 526222008342 S-adenosylmethionine binding site [chemical binding]; other site 526222008343 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 526222008344 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 526222008345 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 526222008346 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 526222008347 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 526222008348 [4Fe-4S] binding site [ion binding]; other site 526222008349 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 526222008350 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 526222008351 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 526222008352 molybdopterin cofactor binding site; other site 526222008353 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 526222008354 AAA domain; Region: AAA_33; pfam13671 526222008355 OsmC-like protein; Region: OsmC; pfam02566 526222008356 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 526222008357 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 526222008358 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 526222008359 dimer interface [polypeptide binding]; other site 526222008360 PYR/PP interface [polypeptide binding]; other site 526222008361 TPP binding site [chemical binding]; other site 526222008362 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 526222008363 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 526222008364 TPP-binding site [chemical binding]; other site 526222008365 dimer interface [polypeptide binding]; other site 526222008366 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 526222008367 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 526222008368 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 526222008369 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 526222008370 putative MPT binding site; other site 526222008371 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 526222008372 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 526222008373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222008374 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 526222008375 dimerization interface [polypeptide binding]; other site 526222008376 substrate binding pocket [chemical binding]; other site 526222008377 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 526222008378 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 526222008379 NMT1-like family; Region: NMT1_2; pfam13379 526222008380 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 526222008381 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 526222008382 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222008383 dimer interface [polypeptide binding]; other site 526222008384 conserved gate region; other site 526222008385 putative PBP binding loops; other site 526222008386 ABC-ATPase subunit interface; other site 526222008387 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 526222008388 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 526222008389 Walker A/P-loop; other site 526222008390 ATP binding site [chemical binding]; other site 526222008391 Q-loop/lid; other site 526222008392 ABC transporter signature motif; other site 526222008393 Walker B; other site 526222008394 D-loop; other site 526222008395 H-loop/switch region; other site 526222008396 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 526222008397 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 526222008398 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 526222008399 AMP binding site [chemical binding]; other site 526222008400 active site 526222008401 acyl-activating enzyme (AAE) consensus motif; other site 526222008402 CoA binding site [chemical binding]; other site 526222008403 active site 526222008404 catalytic residues [active] 526222008405 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 526222008406 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222008407 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 526222008408 Cache domain; Region: Cache_1; pfam02743 526222008409 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 526222008410 dimer interface [polypeptide binding]; other site 526222008411 phosphorylation site [posttranslational modification] 526222008412 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 526222008413 ATP binding site [chemical binding]; other site 526222008414 Mg2+ binding site [ion binding]; other site 526222008415 G-X-G motif; other site 526222008416 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008418 active site 526222008419 phosphorylation site [posttranslational modification] 526222008420 intermolecular recognition site; other site 526222008421 dimerization interface [polypeptide binding]; other site 526222008422 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 526222008423 non-heme iron binding site [ion binding]; other site 526222008424 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 526222008425 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 526222008426 active site residue [active] 526222008427 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 526222008428 active site residue [active] 526222008429 HDOD domain; Region: HDOD; pfam08668 526222008430 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222008431 Zn2+ binding site [ion binding]; other site 526222008432 Mg2+ binding site [ion binding]; other site 526222008433 HDOD domain; Region: HDOD; pfam08668 526222008434 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222008435 Zn2+ binding site [ion binding]; other site 526222008436 Mg2+ binding site [ion binding]; other site 526222008437 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222008438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008439 NAD(P) binding site [chemical binding]; other site 526222008440 active site 526222008441 Predicted membrane protein [Function unknown]; Region: COG4267 526222008442 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 526222008443 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222008444 HEAT repeats; Region: HEAT_2; pfam13646 526222008445 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 526222008446 TPR motif; other site 526222008447 binding surface 526222008448 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 526222008449 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222008450 GAF domain; Region: GAF_3; pfam13492 526222008451 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222008452 active site 526222008453 I-site; other site 526222008454 metal binding site [ion binding]; metal-binding site 526222008455 Sporulation related domain; Region: SPOR; pfam05036 526222008456 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 526222008457 binding surface 526222008458 TPR motif; other site 526222008459 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 526222008460 TPR motif; other site 526222008461 binding surface 526222008462 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 526222008463 TPR motif; other site 526222008464 binding surface 526222008465 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222008466 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 526222008467 TPR motif; other site 526222008468 binding surface 526222008469 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 526222008470 putative active site [active] 526222008471 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 526222008472 Predicted integral membrane protein [Function unknown]; Region: COG5616 526222008473 TM1410 hypothetical-related protein; Region: DUF297; cl00997 526222008474 High-affinity nickel-transport protein; Region: NicO; cl00964 526222008475 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222008476 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222008477 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 526222008478 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222008479 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 526222008480 DctM-like transporters; Region: DctM; pfam06808 526222008481 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 526222008482 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 526222008483 transmembrane helices; other site 526222008484 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222008485 TrkA-C domain; Region: TrkA_C; pfam02080 526222008486 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 526222008487 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 526222008488 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 526222008489 putative amphipathic alpha helix; other site 526222008490 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222008491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222008492 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 526222008493 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 526222008494 PQQ-like domain; Region: PQQ_2; pfam13360 526222008495 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222008496 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222008497 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222008498 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 526222008499 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 526222008500 putative dimer interface [polypeptide binding]; other site 526222008501 putative anticodon binding site; other site 526222008502 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 526222008503 homodimer interface [polypeptide binding]; other site 526222008504 motif 1; other site 526222008505 motif 2; other site 526222008506 active site 526222008507 motif 3; other site 526222008508 Rubrerythrin [Energy production and conversion]; Region: COG1592 526222008509 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 526222008510 binuclear metal center [ion binding]; other site 526222008511 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 526222008512 iron binding site [ion binding]; other site 526222008513 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 526222008514 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 526222008515 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 526222008516 P loop; other site 526222008517 GTP binding site [chemical binding]; other site 526222008518 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 526222008519 active site 526222008520 EamA-like transporter family; Region: EamA; pfam00892 526222008521 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222008522 EamA-like transporter family; Region: EamA; pfam00892 526222008523 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 526222008524 Family description; Region: UvrD_C_2; pfam13538 526222008525 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 526222008526 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 526222008527 Predicted dehydrogenase [General function prediction only]; Region: COG0579 526222008528 hydroxyglutarate oxidase; Provisional; Region: PRK11728 526222008529 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 526222008530 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 526222008531 FMN binding site [chemical binding]; other site 526222008532 substrate binding site [chemical binding]; other site 526222008533 putative catalytic residue [active] 526222008534 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 526222008535 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 526222008536 active site 526222008537 Int/Topo IB signature motif; other site 526222008538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 526222008539 active site 526222008540 phosphorylation site [posttranslational modification] 526222008541 intermolecular recognition site; other site 526222008542 dimerization interface [polypeptide binding]; other site 526222008543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222008544 metal binding site [ion binding]; metal-binding site 526222008545 active site 526222008546 I-site; other site 526222008547 HDOD domain; Region: HDOD; pfam08668 526222008548 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 526222008549 DNA protecting protein DprA; Region: dprA; TIGR00732 526222008550 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222008551 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 526222008552 binding surface 526222008553 TPR motif; other site 526222008554 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 526222008555 putative binding surface; other site 526222008556 active site 526222008557 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 526222008558 putative binding surface; other site 526222008559 active site 526222008560 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; cl00086 526222008561 putative binding surface; other site 526222008562 active site 526222008563 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 526222008564 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 526222008565 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 526222008566 ATP binding site [chemical binding]; other site 526222008567 Mg2+ binding site [ion binding]; other site 526222008568 G-X-G motif; other site 526222008569 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 526222008570 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008572 active site 526222008573 phosphorylation site [posttranslational modification] 526222008574 intermolecular recognition site; other site 526222008575 dimerization interface [polypeptide binding]; other site 526222008576 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 526222008577 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 526222008578 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 526222008579 P-loop; other site 526222008580 Magnesium ion binding site [ion binding]; other site 526222008581 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 526222008582 Magnesium ion binding site [ion binding]; other site 526222008583 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 526222008584 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 526222008585 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 526222008586 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 526222008587 HEAT repeats; Region: HEAT_2; pfam13646 526222008588 protein binding surface [polypeptide binding]; other site 526222008589 HEAT repeats; Region: HEAT_2; pfam13646 526222008590 HEAT repeats; Region: HEAT_2; pfam13646 526222008591 HEAT repeats; Region: HEAT_2; pfam13646 526222008592 HEAT repeats; Region: HEAT_2; pfam13646 526222008593 HEAT repeats; Region: HEAT_2; pfam13646 526222008594 HEAT repeats; Region: HEAT_2; pfam13646 526222008595 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 526222008596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008597 active site 526222008598 phosphorylation site [posttranslational modification] 526222008599 intermolecular recognition site; other site 526222008600 CheB methylesterase; Region: CheB_methylest; pfam01339 526222008601 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 526222008602 GIY-YIG motif/motif A; other site 526222008603 putative active site [active] 526222008604 putative metal binding site [ion binding]; other site 526222008605 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 526222008606 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 526222008607 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 526222008608 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 526222008609 ATP binding site [chemical binding]; other site 526222008610 putative Mg++ binding site [ion binding]; other site 526222008611 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 526222008612 FRG domain; Region: FRG; pfam08867 526222008613 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 526222008614 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222008615 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 526222008616 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222008617 HsdM N-terminal domain; Region: HsdM_N; pfam12161 526222008618 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 526222008619 Methyltransferase domain; Region: Methyltransf_26; pfam13659 526222008620 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 526222008621 active site 526222008622 catalytic residues [active] 526222008623 DNA binding site [nucleotide binding] 526222008624 Int/Topo IB signature motif; other site 526222008625 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 526222008626 RNA binding site [nucleotide binding]; other site 526222008627 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008629 active site 526222008630 phosphorylation site [posttranslational modification] 526222008631 intermolecular recognition site; other site 526222008632 dimerization interface [polypeptide binding]; other site 526222008633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222008634 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 526222008635 ATP binding site [chemical binding]; other site 526222008636 Mg2+ binding site [ion binding]; other site 526222008637 G-X-G motif; other site 526222008638 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222008639 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 526222008640 ATP binding site [chemical binding]; other site 526222008641 Mg2+ binding site [ion binding]; other site 526222008642 G-X-G motif; other site 526222008643 Helix-turn-helix domain; Region: HTH_36; pfam13730 526222008644 Helix-turn-helix domain; Region: HTH_17; pfam12728 526222008645 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 526222008646 active site 526222008647 catalytic residues [active] 526222008648 DNA binding site [nucleotide binding] 526222008649 Int/Topo IB signature motif; other site 526222008650 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 526222008651 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 526222008652 intracellular protease, PfpI family; Region: PfpI; TIGR01382 526222008653 proposed catalytic triad [active] 526222008654 conserved cys residue [active] 526222008655 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 526222008656 active site residue [active] 526222008657 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222008658 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222008659 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222008660 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 526222008661 Walker A/P-loop; other site 526222008662 ATP binding site [chemical binding]; other site 526222008663 Q-loop/lid; other site 526222008664 ABC transporter signature motif; other site 526222008665 Walker B; other site 526222008666 D-loop; other site 526222008667 H-loop/switch region; other site 526222008668 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222008669 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222008670 dimer interface [polypeptide binding]; other site 526222008671 conserved gate region; other site 526222008672 putative PBP binding loops; other site 526222008673 ABC-ATPase subunit interface; other site 526222008674 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222008675 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 526222008676 substrate binding pocket [chemical binding]; other site 526222008677 membrane-bound complex binding site; other site 526222008678 hinge residues; other site 526222008679 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 526222008680 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 526222008681 AAA domain; Region: AAA_32; pfam13654 526222008682 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 526222008683 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 526222008684 Cache domain; Region: Cache_1; pfam02743 526222008685 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 526222008686 dimerization interface [polypeptide binding]; other site 526222008687 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008688 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008689 dimer interface [polypeptide binding]; other site 526222008690 putative CheW interface [polypeptide binding]; other site 526222008691 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 526222008692 Acyltransferase family; Region: Acyl_transf_3; pfam01757 526222008693 Cache domain; Region: Cache_1; pfam02743 526222008694 HAMP domain; Region: HAMP; pfam00672 526222008695 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008696 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008697 dimer interface [polypeptide binding]; other site 526222008698 putative CheW interface [polypeptide binding]; other site 526222008699 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 526222008700 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 526222008701 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 526222008702 FeS/SAM binding site; other site 526222008703 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 526222008704 TPR repeat; Region: TPR_11; pfam13414 526222008705 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 526222008706 TPR motif; other site 526222008707 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 526222008708 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 526222008709 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 526222008710 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 526222008711 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 526222008712 inhibitor-cofactor binding pocket; inhibition site 526222008713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222008714 catalytic residue [active] 526222008715 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 526222008716 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 526222008717 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222008718 Protein of unknown function DUF72; Region: DUF72; cl00777 526222008719 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222008720 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222008721 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222008722 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 526222008723 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 526222008724 Isochorismatase family; Region: Isochorismatase; pfam00857 526222008725 catalytic triad [active] 526222008726 conserved cis-peptide bond; other site 526222008727 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 526222008728 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222008729 Zn2+ binding site [ion binding]; other site 526222008730 Mg2+ binding site [ion binding]; other site 526222008731 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 526222008732 synthetase active site [active] 526222008733 NTP binding site [chemical binding]; other site 526222008734 metal binding site [ion binding]; metal-binding site 526222008735 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 526222008736 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 526222008737 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 526222008738 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 526222008739 peptide binding site [polypeptide binding]; other site 526222008740 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 526222008741 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 526222008742 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 526222008743 ATP binding site [chemical binding]; other site 526222008744 putative Mg++ binding site [ion binding]; other site 526222008745 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 526222008746 nucleotide binding region [chemical binding]; other site 526222008747 ATP-binding site [chemical binding]; other site 526222008748 PilZ domain; Region: PilZ; pfam07238 526222008749 PilZ domain; Region: PilZ; pfam07238 526222008750 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 526222008751 zinc transporter ZupT; Provisional; Region: PRK04201 526222008752 ZIP Zinc transporter; Region: Zip; pfam02535 526222008753 putative cation:proton antiport protein; Provisional; Region: PRK10669 526222008754 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 526222008755 TrkA-N domain; Region: TrkA_N; pfam02254 526222008756 TrkA-C domain; Region: TrkA_C; pfam02080 526222008757 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 526222008758 Cache domain; Region: Cache_1; pfam02743 526222008759 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 526222008760 dimerization interface [polypeptide binding]; other site 526222008761 PAS fold; Region: PAS_4; pfam08448 526222008762 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008763 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008764 dimer interface [polypeptide binding]; other site 526222008765 putative CheW interface [polypeptide binding]; other site 526222008766 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 526222008767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222008768 Walker A/P-loop; other site 526222008769 ATP binding site [chemical binding]; other site 526222008770 Q-loop/lid; other site 526222008771 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 526222008772 ABC transporter; Region: ABC_tran_2; pfam12848 526222008773 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 526222008774 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222008775 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222008776 metal binding site [ion binding]; metal-binding site 526222008777 active site 526222008778 I-site; other site 526222008779 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 526222008780 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222008781 substrate binding pocket [chemical binding]; other site 526222008782 membrane-bound complex binding site; other site 526222008783 hinge residues; other site 526222008784 Cache domain; Region: Cache_1; pfam02743 526222008785 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 526222008786 dimerization interface [polypeptide binding]; other site 526222008787 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008788 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008789 dimer interface [polypeptide binding]; other site 526222008790 putative CheW interface [polypeptide binding]; other site 526222008791 glycogen branching enzyme; Provisional; Region: PRK12313 526222008792 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 526222008793 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 526222008794 active site 526222008795 catalytic site [active] 526222008796 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 526222008797 glycogen synthase; Provisional; Region: glgA; PRK00654 526222008798 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 526222008799 ADP-binding pocket [chemical binding]; other site 526222008800 homodimer interface [polypeptide binding]; other site 526222008801 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 526222008802 nudix motif; other site 526222008803 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 526222008804 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 526222008805 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 526222008806 active site 526222008807 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 526222008808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008809 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008810 active site 526222008811 phosphorylation site [posttranslational modification] 526222008812 intermolecular recognition site; other site 526222008813 dimerization interface [polypeptide binding]; other site 526222008814 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 526222008815 putative binding surface; other site 526222008816 active site 526222008817 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 526222008818 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 526222008819 ATP binding site [chemical binding]; other site 526222008820 Mg2+ binding site [ion binding]; other site 526222008821 G-X-G motif; other site 526222008822 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 526222008823 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222008824 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 526222008825 substrate binding pocket [chemical binding]; other site 526222008826 membrane-bound complex binding site; other site 526222008827 hinge residues; other site 526222008828 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 526222008829 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 526222008830 active site 526222008831 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 526222008832 active site 526222008833 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 526222008834 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 526222008835 catalytic loop [active] 526222008836 iron binding site [ion binding]; other site 526222008837 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 526222008838 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 526222008839 lipoyl synthase; Provisional; Region: PRK05481 526222008840 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 526222008841 FeS/SAM binding site; other site 526222008842 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008844 active site 526222008845 phosphorylation site [posttranslational modification] 526222008846 intermolecular recognition site; other site 526222008847 dimerization interface [polypeptide binding]; other site 526222008848 HDOD domain; Region: HDOD; pfam08668 526222008849 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 526222008850 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222008851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008852 active site 526222008853 phosphorylation site [posttranslational modification] 526222008854 intermolecular recognition site; other site 526222008855 dimerization interface [polypeptide binding]; other site 526222008856 HD domain; Region: HD_5; pfam13487 526222008857 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 526222008858 PAS domain S-box; Region: sensory_box; TIGR00229 526222008859 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 526222008860 putative active site [active] 526222008861 heme pocket [chemical binding]; other site 526222008862 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 526222008863 ATP binding site [chemical binding]; other site 526222008864 Mg2+ binding site [ion binding]; other site 526222008865 G-X-G motif; other site 526222008866 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 526222008867 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 526222008868 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 526222008869 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 526222008870 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 526222008871 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 526222008872 DHH family; Region: DHH; pfam01368 526222008873 DHHA1 domain; Region: DHHA1; pfam02272 526222008874 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222008875 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 526222008876 binding surface 526222008877 TPR motif; other site 526222008878 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222008879 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 526222008880 binding surface 526222008881 TPR motif; other site 526222008882 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 526222008883 active site 526222008884 dimer interface [polypeptide binding]; other site 526222008885 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 526222008886 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 526222008887 catalytic site [active] 526222008888 G-X2-G-X-G-K; other site 526222008889 hypothetical protein; Provisional; Region: PRK04323 526222008890 hypothetical protein; Provisional; Region: PRK11820 526222008891 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 526222008892 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 526222008893 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 526222008894 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 526222008895 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 526222008896 FeS/SAM binding site; other site 526222008897 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 526222008898 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 526222008899 ATP binding site [chemical binding]; other site 526222008900 Mg++ binding site [ion binding]; other site 526222008901 motif III; other site 526222008902 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 526222008903 nucleotide binding region [chemical binding]; other site 526222008904 ATP-binding site [chemical binding]; other site 526222008905 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 526222008906 RNase_H superfamily; Region: RNase_H_2; pfam13482 526222008907 active site 526222008908 substrate binding site [chemical binding]; other site 526222008909 catalytic site [active] 526222008910 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222008911 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 526222008912 putative active site [active] 526222008913 acetyl-CoA synthetase; Provisional; Region: PRK00174 526222008914 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 526222008915 active site 526222008916 CoA binding site [chemical binding]; other site 526222008917 acyl-activating enzyme (AAE) consensus motif; other site 526222008918 AMP binding site [chemical binding]; other site 526222008919 acetate binding site [chemical binding]; other site 526222008920 Pirin-related protein [General function prediction only]; Region: COG1741 526222008921 Pirin; Region: Pirin; pfam02678 526222008922 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 526222008923 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 526222008924 dimer interface [polypeptide binding]; other site 526222008925 FMN binding site [chemical binding]; other site 526222008926 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 526222008927 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 526222008928 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 526222008929 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 526222008930 B12 binding site [chemical binding]; other site 526222008931 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 526222008932 FeS/SAM binding site; other site 526222008933 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 526222008934 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 526222008935 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222008936 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222008937 metal binding site [ion binding]; metal-binding site 526222008938 active site 526222008939 I-site; other site 526222008940 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222008941 Zn2+ binding site [ion binding]; other site 526222008942 Mg2+ binding site [ion binding]; other site 526222008943 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 526222008944 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 526222008945 dimer interface [polypeptide binding]; other site 526222008946 ssDNA binding site [nucleotide binding]; other site 526222008947 tetramer (dimer of dimers) interface [polypeptide binding]; other site 526222008948 pyruvate carboxylase subunit B; Validated; Region: PRK09282 526222008949 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 526222008950 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 526222008951 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 526222008952 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 526222008953 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 526222008954 ATP-grasp domain; Region: ATP-grasp_4; cl17255 526222008955 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 526222008956 PilZ domain; Region: PilZ; pfam07238 526222008957 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 526222008958 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222008959 ligand binding site [chemical binding]; other site 526222008960 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222008961 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 526222008962 purine nucleoside phosphorylase; Provisional; Region: PRK08202 526222008963 Ferredoxin [Energy production and conversion]; Region: COG1146 526222008964 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222008965 hybrid cluster protein; Provisional; Region: PRK05290 526222008966 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 526222008967 ACS interaction site; other site 526222008968 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 526222008969 hybrid metal cluster; other site 526222008970 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 526222008971 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 526222008972 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 526222008973 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222008974 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 526222008975 ligand binding site [chemical binding]; other site 526222008976 flexible hinge region; other site 526222008977 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 526222008978 putative switch regulator; other site 526222008979 non-specific DNA interactions [nucleotide binding]; other site 526222008980 DNA binding site [nucleotide binding] 526222008981 sequence specific DNA binding site [nucleotide binding]; other site 526222008982 putative cAMP binding site [chemical binding]; other site 526222008983 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 526222008984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222008985 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008986 active site 526222008987 phosphorylation site [posttranslational modification] 526222008988 intermolecular recognition site; other site 526222008989 dimerization interface [polypeptide binding]; other site 526222008990 TPR repeat; Region: TPR_11; pfam13414 526222008991 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 526222008992 binding surface 526222008993 TPR motif; other site 526222008994 TPR repeat; Region: TPR_11; pfam13414 526222008995 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 526222008996 binding surface 526222008997 TPR motif; other site 526222008998 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 526222008999 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 526222009000 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 526222009001 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222009002 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 526222009003 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 526222009004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222009005 Walker A/P-loop; other site 526222009006 ATP binding site [chemical binding]; other site 526222009007 Q-loop/lid; other site 526222009008 ABC transporter signature motif; other site 526222009009 Walker B; other site 526222009010 D-loop; other site 526222009011 H-loop/switch region; other site 526222009012 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 526222009013 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 526222009014 CHASE2 domain; Region: CHASE2; pfam05226 526222009015 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 526222009016 cyclase homology domain; Region: CHD; cd07302 526222009017 nucleotidyl binding site; other site 526222009018 metal binding site [ion binding]; metal-binding site 526222009019 dimer interface [polypeptide binding]; other site 526222009020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222009021 AAA domain; Region: AAA_21; pfam13304 526222009022 Walker A/P-loop; other site 526222009023 ATP binding site [chemical binding]; other site 526222009024 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 526222009025 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 526222009026 dimer interface [polypeptide binding]; other site 526222009027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009028 catalytic residue [active] 526222009029 Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: CysS; COG0215 526222009030 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 526222009031 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 526222009032 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 526222009033 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 526222009034 active site 526222009035 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 526222009036 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 526222009037 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009039 active site 526222009040 phosphorylation site [posttranslational modification] 526222009041 intermolecular recognition site; other site 526222009042 dimerization interface [polypeptide binding]; other site 526222009043 HDOD domain; Region: HDOD; pfam08668 526222009044 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222009045 Zn2+ binding site [ion binding]; other site 526222009046 Mg2+ binding site [ion binding]; other site 526222009047 NAD synthetase; Provisional; Region: PRK13981 526222009048 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 526222009049 multimer interface [polypeptide binding]; other site 526222009050 active site 526222009051 catalytic triad [active] 526222009052 protein interface 1 [polypeptide binding]; other site 526222009053 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 526222009054 homodimer interface [polypeptide binding]; other site 526222009055 NAD binding pocket [chemical binding]; other site 526222009056 ATP binding pocket [chemical binding]; other site 526222009057 Mg binding site [ion binding]; other site 526222009058 active-site loop [active] 526222009059 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 526222009060 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 526222009061 dimerization interface [polypeptide binding]; other site 526222009062 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 526222009063 dimer interface [polypeptide binding]; other site 526222009064 phosphorylation site [posttranslational modification] 526222009065 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 526222009066 ATP binding site [chemical binding]; other site 526222009067 Mg2+ binding site [ion binding]; other site 526222009068 G-X-G motif; other site 526222009069 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009071 active site 526222009072 phosphorylation site [posttranslational modification] 526222009073 intermolecular recognition site; other site 526222009074 dimerization interface [polypeptide binding]; other site 526222009075 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009077 active site 526222009078 phosphorylation site [posttranslational modification] 526222009079 intermolecular recognition site; other site 526222009080 dimerization interface [polypeptide binding]; other site 526222009081 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 526222009082 homodimer interface [polypeptide binding]; other site 526222009083 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 526222009084 active site pocket [active] 526222009085 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 526222009086 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 526222009087 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 526222009088 Walker A/P-loop; other site 526222009089 ATP binding site [chemical binding]; other site 526222009090 Q-loop/lid; other site 526222009091 ABC transporter signature motif; other site 526222009092 Walker B; other site 526222009093 D-loop; other site 526222009094 H-loop/switch region; other site 526222009095 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009096 dimer interface [polypeptide binding]; other site 526222009097 conserved gate region; other site 526222009098 putative PBP binding loops; other site 526222009099 ABC-ATPase subunit interface; other site 526222009100 PBP superfamily domain; Region: PBP_like_2; pfam12849 526222009101 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 526222009102 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 526222009103 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 526222009104 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 526222009105 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 526222009106 FeS/SAM binding site; other site 526222009107 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 526222009108 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 526222009109 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 526222009110 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222009111 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222009112 metal binding site [ion binding]; metal-binding site 526222009113 active site 526222009114 I-site; other site 526222009115 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 526222009116 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 526222009117 Walker A motif; other site 526222009118 ATP binding site [chemical binding]; other site 526222009119 Walker B motif; other site 526222009120 arginine finger; other site 526222009121 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 526222009122 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 526222009123 RuvA N terminal domain; Region: RuvA_N; pfam01330 526222009124 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 526222009125 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 526222009126 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 526222009127 active site 526222009128 putative DNA-binding cleft [nucleotide binding]; other site 526222009129 dimer interface [polypeptide binding]; other site 526222009130 hypothetical protein; Validated; Region: PRK00110 526222009131 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 526222009132 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 526222009133 S-adenosylmethionine binding site [chemical binding]; other site 526222009134 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 526222009135 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 526222009136 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 526222009137 BON domain; Region: BON; pfam04972 526222009138 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 526222009139 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222009140 DNA-binding site [nucleotide binding]; DNA binding site 526222009141 FCD domain; Region: FCD; pfam07729 526222009142 Cache domain; Region: Cache_1; pfam02743 526222009143 HAMP domain; Region: HAMP; pfam00672 526222009144 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222009145 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222009146 dimer interface [polypeptide binding]; other site 526222009147 putative CheW interface [polypeptide binding]; other site 526222009148 HAMP domain; Region: HAMP; pfam00672 526222009149 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 526222009150 PAS fold; Region: PAS_3; pfam08447 526222009151 putative active site [active] 526222009152 heme pocket [chemical binding]; other site 526222009153 PAS domain; Region: PAS; smart00091 526222009154 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222009155 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 526222009156 dimer interface [polypeptide binding]; other site 526222009157 phosphorylation site [posttranslational modification] 526222009158 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 526222009159 ATP binding site [chemical binding]; other site 526222009160 Mg2+ binding site [ion binding]; other site 526222009161 G-X-G motif; other site 526222009162 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 526222009163 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 526222009164 AsnC family; Region: AsnC_trans_reg; pfam01037 526222009165 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 526222009166 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 526222009167 substrate-cofactor binding pocket; other site 526222009168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009169 catalytic residue [active] 526222009170 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 526222009171 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 526222009172 NAD(P) binding site [chemical binding]; other site 526222009173 Homeodomain-like domain; Region: HTH_23; cl17451 526222009174 AsmA family; Region: AsmA; pfam05170 526222009175 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 526222009176 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222009177 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 526222009178 DNA binding residues [nucleotide binding] 526222009179 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 526222009180 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222009181 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 526222009182 DNA binding residues [nucleotide binding] 526222009183 Short C-terminal domain; Region: SHOCT; pfam09851 526222009184 DGC domain; Region: DGC; cl01742 526222009185 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 526222009186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222009187 Coenzyme A binding pocket [chemical binding]; other site 526222009188 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 526222009189 Lysine biosynthesis enzyme LysX; Region: LysX_arch; TIGR02144 526222009190 ATP-grasp domain; Region: ATP-grasp_4; cl17255 526222009191 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 526222009192 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 526222009193 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 526222009194 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 526222009195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222009196 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222009197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222009198 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 526222009199 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222009200 Domain of unknown function (DUF389); Region: DUF389; cl00781 526222009201 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 526222009202 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 526222009203 oligomer interface [polypeptide binding]; other site 526222009204 metal binding site [ion binding]; metal-binding site 526222009205 metal binding site [ion binding]; metal-binding site 526222009206 Cl binding site [ion binding]; other site 526222009207 aspartate ring; other site 526222009208 basic sphincter; other site 526222009209 putative hydrophobic gate; other site 526222009210 periplasmic entrance; other site 526222009211 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 526222009212 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 526222009213 FeS/SAM binding site; other site 526222009214 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 526222009215 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 526222009216 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 526222009217 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 526222009218 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 526222009219 active site 526222009220 catalytic site [active] 526222009221 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222009222 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 526222009223 Walker A/P-loop; other site 526222009224 ATP binding site [chemical binding]; other site 526222009225 Q-loop/lid; other site 526222009226 ABC transporter signature motif; other site 526222009227 Walker B; other site 526222009228 D-loop; other site 526222009229 H-loop/switch region; other site 526222009230 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009231 dimer interface [polypeptide binding]; other site 526222009232 conserved gate region; other site 526222009233 putative PBP binding loops; other site 526222009234 ABC-ATPase subunit interface; other site 526222009235 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 526222009236 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009237 conserved gate region; other site 526222009238 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009239 dimer interface [polypeptide binding]; other site 526222009240 conserved gate region; other site 526222009241 putative PBP binding loops; other site 526222009242 ABC-ATPase subunit interface; other site 526222009243 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 526222009244 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 526222009245 substrate binding pocket [chemical binding]; other site 526222009246 membrane-bound complex binding site; other site 526222009247 hinge residues; other site 526222009248 transcriptional regulator protein; Region: phnR; TIGR03337 526222009249 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222009250 DNA-binding site [nucleotide binding]; DNA binding site 526222009251 UTRA domain; Region: UTRA; cl17743 526222009252 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 526222009253 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 526222009254 active site 526222009255 trimer interface [polypeptide binding]; other site 526222009256 allosteric site; other site 526222009257 active site lid [active] 526222009258 hexamer (dimer of trimers) interface [polypeptide binding]; other site 526222009259 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222009260 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 526222009261 S-adenosylmethionine binding site [chemical binding]; other site 526222009262 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 526222009263 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 526222009264 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 526222009265 protein binding site [polypeptide binding]; other site 526222009266 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 526222009267 protein binding site [polypeptide binding]; other site 526222009268 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14609 526222009269 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 526222009270 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 526222009271 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 526222009272 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222009273 active site 526222009274 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 526222009275 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 526222009276 5S rRNA interface [nucleotide binding]; other site 526222009277 CTC domain interface [polypeptide binding]; other site 526222009278 L16 interface [polypeptide binding]; other site 526222009279 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 526222009280 putative active site [active] 526222009281 catalytic residue [active] 526222009282 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 526222009283 transcription termination factor Rho; Provisional; Region: rho; PRK09376 526222009284 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 526222009285 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 526222009286 RNA binding site [nucleotide binding]; other site 526222009287 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 526222009288 multimer interface [polypeptide binding]; other site 526222009289 Walker A motif; other site 526222009290 ATP binding site [chemical binding]; other site 526222009291 Walker B motif; other site 526222009292 Peptidase family M48; Region: Peptidase_M48; pfam01435 526222009293 TPR repeat; Region: TPR_11; pfam13414 526222009294 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 526222009295 binding surface 526222009296 TPR motif; other site 526222009297 TPR repeat; Region: TPR_11; pfam13414 526222009298 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 526222009299 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 526222009300 active site 526222009301 Riboflavin kinase; Region: Flavokinase; pfam01687 526222009302 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 526222009303 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 526222009304 Cl- selectivity filter; other site 526222009305 Cl- binding residues [ion binding]; other site 526222009306 pore gating glutamate residue; other site 526222009307 dimer interface [polypeptide binding]; other site 526222009308 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 526222009309 FOG: CBS domain [General function prediction only]; Region: COG0517 526222009310 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 526222009311 active site 526222009312 HslU subunit interaction site [polypeptide binding]; other site 526222009313 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 526222009314 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 526222009315 Walker A motif; other site 526222009316 ATP binding site [chemical binding]; other site 526222009317 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 526222009318 Walker B motif; other site 526222009319 arginine finger; other site 526222009320 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 526222009321 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222009322 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 526222009323 binding surface 526222009324 TPR motif; other site 526222009325 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222009326 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 526222009327 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 526222009328 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 526222009329 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 526222009330 diiron binding motif [ion binding]; other site 526222009331 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; cl00086 526222009332 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 526222009333 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 526222009334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009335 homodimer interface [polypeptide binding]; other site 526222009336 catalytic residue [active] 526222009337 CHASE3 domain; Region: CHASE3; cl05000 526222009338 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 526222009339 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 526222009340 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 526222009341 dimerization interface [polypeptide binding]; other site 526222009342 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222009343 dimer interface [polypeptide binding]; other site 526222009344 putative CheW interface [polypeptide binding]; other site 526222009345 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 526222009346 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 526222009347 putative ligand binding site [chemical binding]; other site 526222009348 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 526222009349 TM-ABC transporter signature motif; other site 526222009350 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 526222009351 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 526222009352 TM-ABC transporter signature motif; other site 526222009353 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 526222009354 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 526222009355 Walker A/P-loop; other site 526222009356 ATP binding site [chemical binding]; other site 526222009357 Q-loop/lid; other site 526222009358 ABC transporter signature motif; other site 526222009359 Walker B; other site 526222009360 D-loop; other site 526222009361 H-loop/switch region; other site 526222009362 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 526222009363 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 526222009364 Walker A/P-loop; other site 526222009365 ATP binding site [chemical binding]; other site 526222009366 Q-loop/lid; other site 526222009367 ABC transporter signature motif; other site 526222009368 Walker B; other site 526222009369 D-loop; other site 526222009370 H-loop/switch region; other site 526222009371 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 526222009372 UPF0126 domain; Region: UPF0126; pfam03458 526222009373 hypothetical protein; Provisional; Region: PRK10578 526222009374 UPF0126 domain; Region: UPF0126; pfam03458 526222009375 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 526222009376 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 526222009377 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 526222009378 putative active site [active] 526222009379 putative substrate binding site [chemical binding]; other site 526222009380 putative cosubstrate binding site; other site 526222009381 catalytic site [active] 526222009382 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222009383 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 526222009384 FeS/SAM binding site; other site 526222009385 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 526222009386 ATP cone domain; Region: ATP-cone; pfam03477 526222009387 Class III ribonucleotide reductase; Region: RNR_III; cd01675 526222009388 effector binding site; other site 526222009389 active site 526222009390 Zn binding site [ion binding]; other site 526222009391 glycine loop; other site 526222009392 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009394 active site 526222009395 phosphorylation site [posttranslational modification] 526222009396 intermolecular recognition site; other site 526222009397 dimerization interface [polypeptide binding]; other site 526222009398 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 526222009399 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 526222009400 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 526222009401 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 526222009402 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 526222009403 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 526222009404 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 526222009405 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 526222009406 DNA polymerase I; Provisional; Region: PRK05755 526222009407 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 526222009408 active site 526222009409 metal binding site 1 [ion binding]; metal-binding site 526222009410 putative 5' ssDNA interaction site; other site 526222009411 metal binding site 3; metal-binding site 526222009412 metal binding site 2 [ion binding]; metal-binding site 526222009413 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 526222009414 putative DNA binding site [nucleotide binding]; other site 526222009415 putative metal binding site [ion binding]; other site 526222009416 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 526222009417 active site 526222009418 substrate binding site [chemical binding]; other site 526222009419 catalytic site [active] 526222009420 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 526222009421 active site 526222009422 DNA binding site [nucleotide binding] 526222009423 catalytic site [active] 526222009424 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 526222009425 DHH family; Region: DHH; pfam01368 526222009426 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 526222009427 homotrimer interface [polypeptide binding]; other site 526222009428 Walker A motif; other site 526222009429 GTP binding site [chemical binding]; other site 526222009430 Walker B motif; other site 526222009431 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 526222009432 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 526222009433 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 526222009434 Part of AAA domain; Region: AAA_19; pfam13245 526222009435 Family description; Region: UvrD_C_2; pfam13538 526222009436 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 526222009437 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 526222009438 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 526222009439 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009440 dimer interface [polypeptide binding]; other site 526222009441 conserved gate region; other site 526222009442 putative PBP binding loops; other site 526222009443 ABC-ATPase subunit interface; other site 526222009444 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 526222009445 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 526222009446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009447 dimer interface [polypeptide binding]; other site 526222009448 conserved gate region; other site 526222009449 putative PBP binding loops; other site 526222009450 ABC-ATPase subunit interface; other site 526222009451 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 526222009452 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 526222009453 Walker A/P-loop; other site 526222009454 ATP binding site [chemical binding]; other site 526222009455 Q-loop/lid; other site 526222009456 ABC transporter signature motif; other site 526222009457 Walker B; other site 526222009458 D-loop; other site 526222009459 H-loop/switch region; other site 526222009460 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 526222009461 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 526222009462 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 526222009463 Walker A/P-loop; other site 526222009464 ATP binding site [chemical binding]; other site 526222009465 Q-loop/lid; other site 526222009466 ABC transporter signature motif; other site 526222009467 Walker B; other site 526222009468 D-loop; other site 526222009469 H-loop/switch region; other site 526222009470 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 526222009471 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 526222009472 binding surface 526222009473 TPR repeat; Region: TPR_11; pfam13414 526222009474 TPR motif; other site 526222009475 TPR repeat; Region: TPR_11; pfam13414 526222009476 TPR repeat; Region: TPR_11; pfam13414 526222009477 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 526222009478 TPR motif; other site 526222009479 TPR repeat; Region: TPR_11; pfam13414 526222009480 binding surface 526222009481 Flagellar protein YcgR; Region: YcgR_2; pfam12945 526222009482 PilZ domain; Region: PilZ; pfam07238 526222009483 biotin synthase; Region: bioB; TIGR00433 526222009484 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 526222009485 FeS/SAM binding site; other site 526222009486 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 526222009487 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 526222009488 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 526222009489 inhibitor-cofactor binding pocket; inhibition site 526222009490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009491 catalytic residue [active] 526222009492 AAA domain; Region: AAA_26; pfam13500 526222009493 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 526222009494 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 526222009495 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 526222009496 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 526222009497 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 526222009498 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 526222009499 putative ligand binding pocket/active site [active] 526222009500 putative metal binding site [ion binding]; other site 526222009501 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 526222009502 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222009503 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 526222009504 Walker A motif; other site 526222009505 ATP binding site [chemical binding]; other site 526222009506 Walker B motif; other site 526222009507 arginine finger; other site 526222009508 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222009509 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 526222009510 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222009511 putative substrate translocation pore; other site 526222009512 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 526222009513 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222009514 Transcriptional regulator; Region: Rrf2; cl17282 526222009515 Rrf2 family protein; Region: rrf2_super; TIGR00738 526222009516 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 526222009517 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 526222009518 active site residue [active] 526222009519 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 526222009520 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 526222009521 putative GTP cyclohydrolase; Provisional; Region: PRK13674 526222009522 nickel responsive regulator; Provisional; Region: PRK04460 526222009523 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 526222009524 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 526222009525 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 526222009526 S-adenosylmethionine binding site [chemical binding]; other site 526222009527 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 526222009528 lipoyl attachment site [posttranslational modification]; other site 526222009529 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 526222009530 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 526222009531 tetramer interface [polypeptide binding]; other site 526222009532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009533 catalytic residue [active] 526222009534 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 526222009535 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222009536 catalytic residue [active] 526222009537 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 526222009538 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 526222009539 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222009540 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222009541 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 526222009542 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222009543 substrate binding pocket [chemical binding]; other site 526222009544 membrane-bound complex binding site; other site 526222009545 hinge residues; other site 526222009546 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 526222009547 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 526222009548 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222009549 DRTGG domain; Region: DRTGG; pfam07085 526222009550 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 526222009551 CoA binding domain; Region: CoA_binding_2; pfam13380 526222009552 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 526222009553 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 526222009554 ribonuclease III; Reviewed; Region: rnc; PRK00102 526222009555 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 526222009556 dimerization interface [polypeptide binding]; other site 526222009557 active site 526222009558 metal binding site [ion binding]; metal-binding site 526222009559 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 526222009560 dsRNA binding site [nucleotide binding]; other site 526222009561 flagellin; Provisional; Region: PRK12802 526222009562 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222009563 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222009564 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 526222009565 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 526222009566 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 526222009567 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 526222009568 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 526222009569 Flagellar hook capping protein [Cell motility and secretion]; Region: FlgD; COG1843 526222009570 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 526222009571 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 526222009572 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222009573 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 526222009574 putative active site [active] 526222009575 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 526222009576 active site 526222009577 intersubunit interactions; other site 526222009578 catalytic residue [active] 526222009579 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 526222009580 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 526222009581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009582 catalytic residue [active] 526222009583 Flagellin N-methylase; Region: FliB; pfam03692 526222009584 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 526222009585 Sodium Bile acid symporter family; Region: SBF; pfam01758 526222009586 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 526222009587 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 526222009588 putative binding surface; other site 526222009589 active site 526222009590 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 526222009591 HAMP domain; Region: HAMP; pfam00672 526222009592 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 526222009593 dimer interface [polypeptide binding]; other site 526222009594 phosphorylation site [posttranslational modification] 526222009595 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 526222009596 ATP binding site [chemical binding]; other site 526222009597 Mg2+ binding site [ion binding]; other site 526222009598 G-X-G motif; other site 526222009599 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009601 active site 526222009602 phosphorylation site [posttranslational modification] 526222009603 intermolecular recognition site; other site 526222009604 dimerization interface [polypeptide binding]; other site 526222009605 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009607 active site 526222009608 phosphorylation site [posttranslational modification] 526222009609 intermolecular recognition site; other site 526222009610 dimerization interface [polypeptide binding]; other site 526222009611 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 526222009612 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 526222009613 ligand binding site [chemical binding]; other site 526222009614 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 526222009615 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 526222009616 G1 box; other site 526222009617 GTP/Mg2+ binding site [chemical binding]; other site 526222009618 G2 box; other site 526222009619 Switch I region; other site 526222009620 G3 box; other site 526222009621 Switch II region; other site 526222009622 G4 box; other site 526222009623 G5 box; other site 526222009624 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 526222009625 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 526222009626 active site 526222009627 HIGH motif; other site 526222009628 nucleotide binding site [chemical binding]; other site 526222009629 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 526222009630 KMSKS motif; other site 526222009631 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 526222009632 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 526222009633 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 526222009634 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 526222009635 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222009636 putative active site [active] 526222009637 heme pocket [chemical binding]; other site 526222009638 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 526222009639 putative active site [active] 526222009640 heme pocket [chemical binding]; other site 526222009641 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222009642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222009643 metal binding site [ion binding]; metal-binding site 526222009644 active site 526222009645 I-site; other site 526222009646 Homeodomain-like domain; Region: HTH_23; pfam13384 526222009647 Predicted transcriptional regulator [Transcription]; Region: COG2932 526222009648 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 526222009649 Catalytic site [active] 526222009650 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 526222009651 oligomerisation interface [polypeptide binding]; other site 526222009652 mobile loop; other site 526222009653 roof hairpin; other site 526222009654 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 526222009655 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 526222009656 ring oligomerisation interface [polypeptide binding]; other site 526222009657 ATP/Mg binding site [chemical binding]; other site 526222009658 stacking interactions; other site 526222009659 hinge regions; other site 526222009660 lipoyl synthase; Provisional; Region: PRK05481 526222009661 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 526222009662 FeS/SAM binding site; other site 526222009663 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 526222009664 lipoyl attachment site [posttranslational modification]; other site 526222009665 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 526222009666 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222009667 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222009668 OsmC-like protein; Region: OsmC; pfam02566 526222009669 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 526222009670 binding surface 526222009671 TPR motif; other site 526222009672 Peptidase family M48; Region: Peptidase_M48; pfam01435 526222009673 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; cl00214 526222009674 active site 526222009675 intersubunit interface [polypeptide binding]; other site 526222009676 Zn2+ binding site [ion binding]; other site 526222009677 MarC family integral membrane protein; Region: MarC; cl00919 526222009678 PAS domain; Region: PAS_9; pfam13426 526222009679 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 526222009680 PAS domain; Region: PAS_9; pfam13426 526222009681 putative active site [active] 526222009682 heme pocket [chemical binding]; other site 526222009683 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 526222009684 dimer interface [polypeptide binding]; other site 526222009685 phosphorylation site [posttranslational modification] 526222009686 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009688 active site 526222009689 phosphorylation site [posttranslational modification] 526222009690 intermolecular recognition site; other site 526222009691 dimerization interface [polypeptide binding]; other site 526222009692 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 526222009693 putative CheA interaction surface; other site 526222009694 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 526222009695 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 526222009696 dimerization interface [polypeptide binding]; other site 526222009697 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222009698 dimer interface [polypeptide binding]; other site 526222009699 putative CheW interface [polypeptide binding]; other site 526222009700 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; cl00086 526222009701 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222009702 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 526222009703 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009705 active site 526222009706 phosphorylation site [posttranslational modification] 526222009707 intermolecular recognition site; other site 526222009708 dimerization interface [polypeptide binding]; other site 526222009709 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009710 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009711 active site 526222009712 phosphorylation site [posttranslational modification] 526222009713 intermolecular recognition site; other site 526222009714 dimerization interface [polypeptide binding]; other site 526222009715 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222009716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222009717 metal binding site [ion binding]; metal-binding site 526222009718 active site 526222009719 I-site; other site 526222009720 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 526222009721 active site 526222009722 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222009723 heme-binding residues [chemical binding]; other site 526222009724 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222009725 Cysteine-rich domain; Region: CCG; pfam02754 526222009726 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 526222009727 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 526222009728 DRTGG domain; Region: DRTGG; pfam07085 526222009729 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 526222009730 CoA binding domain; Region: CoA_binding_2; pfam13380 526222009731 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 526222009732 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 526222009733 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 526222009734 HD domain; Region: HD_5; pfam13487 526222009735 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222009736 Protein export membrane protein; Region: SecD_SecF; cl14618 526222009737 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222009738 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222009739 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 526222009740 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 526222009741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009742 active site 526222009743 phosphorylation site [posttranslational modification] 526222009744 intermolecular recognition site; other site 526222009745 dimerization interface [polypeptide binding]; other site 526222009746 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 526222009747 DNA binding site [nucleotide binding] 526222009748 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222009749 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 526222009750 dimerization interface [polypeptide binding]; other site 526222009751 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 526222009752 dimer interface [polypeptide binding]; other site 526222009753 phosphorylation site [posttranslational modification] 526222009754 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 526222009755 ATP binding site [chemical binding]; other site 526222009756 Mg2+ binding site [ion binding]; other site 526222009757 G-X-G motif; other site 526222009758 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222009759 Coenzyme A binding pocket [chemical binding]; other site 526222009760 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222009761 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 526222009762 S-adenosylmethionine binding site [chemical binding]; other site 526222009763 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 526222009764 substrate binding site [chemical binding]; other site 526222009765 active site 526222009766 catalytic residues [active] 526222009767 heterodimer interface [polypeptide binding]; other site 526222009768 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 526222009769 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 526222009770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009771 catalytic residue [active] 526222009772 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 526222009773 active site 526222009774 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 526222009775 active site 526222009776 ribulose/triose binding site [chemical binding]; other site 526222009777 phosphate binding site [ion binding]; other site 526222009778 substrate (anthranilate) binding pocket [chemical binding]; other site 526222009779 product (indole) binding pocket [chemical binding]; other site 526222009780 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 526222009781 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 526222009782 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 526222009783 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 526222009784 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 526222009785 glutamine binding [chemical binding]; other site 526222009786 catalytic triad [active] 526222009787 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 526222009788 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 526222009789 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 526222009790 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 526222009791 prephenate dehydrogenase; Validated; Region: PRK08507 526222009792 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 526222009793 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 526222009794 hinge; other site 526222009795 active site 526222009796 Chorismate mutase type II; Region: CM_2; pfam01817 526222009797 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 526222009798 Prephenate dehydratase; Region: PDT; pfam00800 526222009799 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 526222009800 putative L-Phe binding site [chemical binding]; other site 526222009801 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 526222009802 3-dehydroquinate synthase; Provisional; Region: PRK02290 526222009803 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 526222009804 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 526222009805 putative active site; other site 526222009806 catalytic residue [active] 526222009807 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 526222009808 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 526222009809 Nitrogen regulatory protein P-II; Region: P-II; smart00938 526222009810 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 526222009811 Predicted permeases [General function prediction only]; Region: RarD; COG2962 526222009812 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 526222009813 Cache domain; Region: Cache_1; pfam02743 526222009814 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 526222009815 PAS fold; Region: PAS_3; pfam08447 526222009816 putative active site [active] 526222009817 heme pocket [chemical binding]; other site 526222009818 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 526222009819 PAS domain; Region: PAS_9; pfam13426 526222009820 putative active site [active] 526222009821 heme pocket [chemical binding]; other site 526222009822 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222009823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222009824 metal binding site [ion binding]; metal-binding site 526222009825 active site 526222009826 I-site; other site 526222009827 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 526222009828 Aspartase; Region: Aspartase; cd01357 526222009829 active sites [active] 526222009830 tetramer interface [polypeptide binding]; other site 526222009831 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 526222009832 aromatic amino acid transport protein; Region: araaP; TIGR00837 526222009833 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 526222009834 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 526222009835 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 526222009836 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 526222009837 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 526222009838 ATP binding site [chemical binding]; other site 526222009839 Mg++ binding site [ion binding]; other site 526222009840 motif III; other site 526222009841 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 526222009842 nucleotide binding region [chemical binding]; other site 526222009843 ATP-binding site [chemical binding]; other site 526222009844 Adenosylhomocysteinase; Provisional; Region: PTZ00075 526222009845 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 526222009846 homotetramer interface [polypeptide binding]; other site 526222009847 ligand binding site [chemical binding]; other site 526222009848 catalytic site [active] 526222009849 NAD binding site [chemical binding]; other site 526222009850 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 526222009851 dimerization interface [polypeptide binding]; other site 526222009852 putative DNA binding site [nucleotide binding]; other site 526222009853 putative Zn2+ binding site [ion binding]; other site 526222009854 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222009855 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 526222009856 S-adenosylmethionine binding site [chemical binding]; other site 526222009857 Protein of unknown function (DUF721); Region: DUF721; pfam05258 526222009858 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 526222009859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222009860 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 526222009861 dimerization interface [polypeptide binding]; other site 526222009862 substrate binding pocket [chemical binding]; other site 526222009863 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222009864 Zn2+ binding site [ion binding]; other site 526222009865 Mg2+ binding site [ion binding]; other site 526222009866 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 526222009867 XXXCH domain; Region: XXXCH_domain; TIGR04358 526222009868 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 526222009869 amphi-Trp domain; Region: amphi-Trp; TIGR04354 526222009870 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 526222009871 PhoU domain; Region: PhoU; pfam01895 526222009872 PhoU domain; Region: PhoU; pfam01895 526222009873 Phosphotransferase enzyme family; Region: APH; pfam01636 526222009874 Ecdysteroid kinase; Region: EcKinase; cl17738 526222009875 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 526222009876 ATP-grasp domain; Region: ATP-grasp_4; cl17255 526222009877 HprK-related kinase B; Region: HprK_rel_B; TIGR04355 526222009878 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 526222009879 active site 526222009880 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 526222009881 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 526222009882 phosphate binding site [ion binding]; other site 526222009883 putative substrate binding pocket [chemical binding]; other site 526222009884 dimer interface [polypeptide binding]; other site 526222009885 amphi-Trp domain; Region: amphi-Trp; TIGR04354 526222009886 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 526222009887 4Fe-4S binding domain; Region: Fer4_6; pfam12837 526222009888 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 526222009889 putative FMN binding site [chemical binding]; other site 526222009890 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 526222009891 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222009892 putative active site [active] 526222009893 heme pocket [chemical binding]; other site 526222009894 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222009895 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 526222009896 dimer interface [polypeptide binding]; other site 526222009897 phosphorylation site [posttranslational modification] 526222009898 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 526222009899 ATP binding site [chemical binding]; other site 526222009900 Mg2+ binding site [ion binding]; other site 526222009901 G-X-G motif; other site 526222009902 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222009903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009904 active site 526222009905 phosphorylation site [posttranslational modification] 526222009906 intermolecular recognition site; other site 526222009907 dimerization interface [polypeptide binding]; other site 526222009908 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 526222009909 endonuclease IV; Provisional; Region: PRK01060 526222009910 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 526222009911 AP (apurinic/apyrimidinic) site pocket; other site 526222009912 DNA interaction; other site 526222009913 Metal-binding active site; metal-binding site 526222009914 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 526222009915 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 526222009916 phosphate binding site [ion binding]; other site 526222009917 putative substrate binding pocket [chemical binding]; other site 526222009918 dimer interface [polypeptide binding]; other site 526222009919 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 526222009920 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 526222009921 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 526222009922 Protein of unknown function, DUF482; Region: DUF482; pfam04339 526222009923 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 526222009924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222009925 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 526222009926 dimerization interface [polypeptide binding]; other site 526222009927 substrate binding pocket [chemical binding]; other site 526222009928 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 526222009929 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 526222009930 active site 526222009931 trimerization site [polypeptide binding]; other site 526222009932 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 526222009933 dimerization interface [polypeptide binding]; other site 526222009934 PAS domain S-box; Region: sensory_box; TIGR00229 526222009935 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 526222009936 putative active site [active] 526222009937 heme pocket [chemical binding]; other site 526222009938 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 526222009939 dimer interface [polypeptide binding]; other site 526222009940 phosphorylation site [posttranslational modification] 526222009941 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 526222009942 ATP binding site [chemical binding]; other site 526222009943 Mg2+ binding site [ion binding]; other site 526222009944 G-X-G motif; other site 526222009945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222009946 active site 526222009947 phosphorylation site [posttranslational modification] 526222009948 intermolecular recognition site; other site 526222009949 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222009950 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 526222009951 putative catalytic site [active] 526222009952 putative metal binding site [ion binding]; other site 526222009953 putative phosphate binding site [ion binding]; other site 526222009954 Galactose binding lectin domain; Region: Gal_Lectin; pfam02140 526222009955 UPF0489 domain; Region: UPF0489; pfam12640 526222009956 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 526222009957 Predicted transcriptional regulator [Transcription]; Region: COG2932 526222009958 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 526222009959 Catalytic site [active] 526222009960 ribonuclease R; Region: RNase_R; TIGR02063 526222009961 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 526222009962 RNB domain; Region: RNB; pfam00773 526222009963 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 526222009964 RNA binding site [nucleotide binding]; other site 526222009965 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 526222009966 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 526222009967 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 526222009968 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 526222009969 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 526222009970 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222009971 putative substrate translocation pore; other site 526222009972 POT family; Region: PTR2; cl17359 526222009973 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 526222009974 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 526222009975 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 526222009976 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 526222009977 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 526222009978 Ligand Binding Site [chemical binding]; other site 526222009979 Domain of unknown function (DUF814); Region: DUF814; pfam05670 526222009980 recombinase A; Provisional; Region: recA; PRK09354 526222009981 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 526222009982 hexamer interface [polypeptide binding]; other site 526222009983 Walker A motif; other site 526222009984 ATP binding site [chemical binding]; other site 526222009985 Walker B motif; other site 526222009986 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 526222009987 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 526222009988 motif 1; other site 526222009989 active site 526222009990 motif 2; other site 526222009991 motif 3; other site 526222009992 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 526222009993 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 526222009994 23S rRNA interface [nucleotide binding]; other site 526222009995 L3 interface [polypeptide binding]; other site 526222009996 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 526222009997 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 526222009998 EAL domain; Region: EAL; pfam00563 526222009999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010000 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 526222010001 phosphorylation site [posttranslational modification] 526222010002 dimer interface [polypeptide binding]; other site 526222010003 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 526222010004 ATP binding site [chemical binding]; other site 526222010005 Mg2+ binding site [ion binding]; other site 526222010006 G-X-G motif; other site 526222010007 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 526222010008 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222010009 FeS/SAM binding site; other site 526222010010 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 526222010011 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 526222010012 hypothetical protein; Validated; Region: PRK00029 526222010013 Uncharacterized conserved protein [Function unknown]; Region: COG0397 526222010014 Sel1-like repeats; Region: SEL1; smart00671 526222010015 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 526222010016 Sel1-like repeats; Region: SEL1; smart00671 526222010017 Sel1-like repeats; Region: SEL1; smart00671 526222010018 Sel1-like repeats; Region: SEL1; smart00671 526222010019 Sel1-like repeats; Region: SEL1; smart00671 526222010020 Sel1-like repeats; Region: SEL1; smart00671 526222010021 Sel1-like repeats; Region: SEL1; smart00671 526222010022 Sel1-like repeats; Region: SEL1; smart00671 526222010023 Sel1-like repeats; Region: SEL1; smart00671 526222010024 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 526222010025 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 526222010026 dimerization interface [polypeptide binding]; other site 526222010027 putative ATP binding site [chemical binding]; other site 526222010028 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 526222010029 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 526222010030 FeS/SAM binding site; other site 526222010031 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 526222010032 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 526222010033 Beta-lactamase; Region: Beta-lactamase; pfam00144 526222010034 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 526222010035 DsrE/DsrF-like family; Region: DrsE; cl00672 526222010036 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 526222010037 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 526222010038 MarR family; Region: MarR; pfam01047 526222010039 MarR family; Region: MarR_2; cl17246 526222010040 Uncharacterized conserved protein [Function unknown]; Region: COG1284 526222010041 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 526222010042 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 526222010043 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 526222010044 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222010045 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 526222010046 substrate binding pocket [chemical binding]; other site 526222010047 membrane-bound complex binding site; other site 526222010048 hinge residues; other site 526222010049 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 526222010050 PAS fold; Region: PAS_3; pfam08447 526222010051 putative active site [active] 526222010052 heme pocket [chemical binding]; other site 526222010053 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 526222010054 dimer interface [polypeptide binding]; other site 526222010055 phosphorylation site [posttranslational modification] 526222010056 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 526222010057 ATP binding site [chemical binding]; other site 526222010058 Mg2+ binding site [ion binding]; other site 526222010059 G-X-G motif; other site 526222010060 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222010061 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 526222010062 dimer interface [polypeptide binding]; other site 526222010063 phosphorylation site [posttranslational modification] 526222010064 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 526222010065 ATP binding site [chemical binding]; other site 526222010066 Mg2+ binding site [ion binding]; other site 526222010067 G-X-G motif; other site 526222010068 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 526222010069 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 526222010070 ligand binding site [chemical binding]; other site 526222010071 Domain of unknown function (DUF389); Region: DUF389; pfam04087 526222010072 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 526222010073 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222010074 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 526222010075 putative active site [active] 526222010076 heme pocket [chemical binding]; other site 526222010077 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 526222010078 dimer interface [polypeptide binding]; other site 526222010079 phosphorylation site [posttranslational modification] 526222010080 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 526222010081 ATP binding site [chemical binding]; other site 526222010082 Mg2+ binding site [ion binding]; other site 526222010083 G-X-G motif; other site 526222010084 glycerol kinase; Provisional; Region: glpK; PRK00047 526222010085 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 526222010086 N- and C-terminal domain interface [polypeptide binding]; other site 526222010087 active site 526222010088 MgATP binding site [chemical binding]; other site 526222010089 catalytic site [active] 526222010090 metal binding site [ion binding]; metal-binding site 526222010091 glycerol binding site [chemical binding]; other site 526222010092 homotetramer interface [polypeptide binding]; other site 526222010093 homodimer interface [polypeptide binding]; other site 526222010094 FBP binding site [chemical binding]; other site 526222010095 protein IIAGlc interface [polypeptide binding]; other site 526222010096 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 526222010097 amphipathic channel; other site 526222010098 Asn-Pro-Ala signature motifs; other site 526222010099 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 526222010100 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 526222010101 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 526222010102 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 526222010103 putative metalloenzyme radical SAM/SPASM domain maturase; Region: rSAM_Geo_metal; TIGR04311 526222010104 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 526222010105 FeS/SAM binding site; other site 526222010106 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 526222010107 TSCPD domain; Region: TSCPD; cl14834 526222010108 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 526222010109 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222010110 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 526222010111 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 526222010112 putative active site [active] 526222010113 catalytic site [active] 526222010114 putative metal binding site [ion binding]; other site 526222010115 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222010116 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 526222010117 putative active site [active] 526222010118 metal binding site [ion binding]; metal-binding site 526222010119 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 526222010120 EF-hand domain pair; Region: EF_hand_5; pfam13499 526222010121 Ca2+ binding site [ion binding]; other site 526222010122 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 526222010123 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 526222010124 active site 526222010125 DNA binding site [nucleotide binding] 526222010126 Int/Topo IB signature motif; other site 526222010127 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 526222010128 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222010129 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 526222010130 nucleoside/Zn binding site; other site 526222010131 dimer interface [polypeptide binding]; other site 526222010132 catalytic motif [active] 526222010133 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222010134 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222010135 putative substrate translocation pore; other site 526222010136 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 526222010137 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 526222010138 aspartate racemase; Region: asp_race; TIGR00035 526222010139 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 526222010140 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 526222010141 AAA domain; Region: AAA_28; pfam13521 526222010142 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 526222010143 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 526222010144 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 526222010145 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010146 dimer interface [polypeptide binding]; other site 526222010147 conserved gate region; other site 526222010148 putative PBP binding loops; other site 526222010149 ABC-ATPase subunit interface; other site 526222010150 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 526222010151 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 526222010152 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010153 dimer interface [polypeptide binding]; other site 526222010154 conserved gate region; other site 526222010155 putative PBP binding loops; other site 526222010156 ABC-ATPase subunit interface; other site 526222010157 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 526222010158 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 526222010159 Walker A/P-loop; other site 526222010160 ATP binding site [chemical binding]; other site 526222010161 Q-loop/lid; other site 526222010162 ABC transporter signature motif; other site 526222010163 Walker B; other site 526222010164 D-loop; other site 526222010165 H-loop/switch region; other site 526222010166 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 526222010167 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 526222010168 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 526222010169 Walker A/P-loop; other site 526222010170 ATP binding site [chemical binding]; other site 526222010171 Q-loop/lid; other site 526222010172 ABC transporter signature motif; other site 526222010173 Walker B; other site 526222010174 D-loop; other site 526222010175 H-loop/switch region; other site 526222010176 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 526222010177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222010178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222010179 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 526222010180 dimerization interface [polypeptide binding]; other site 526222010181 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 526222010182 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 526222010183 Flavodoxin domain; Region: Flavodoxin_5; cl17428 526222010184 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222010185 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 526222010186 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 526222010187 GTP binding site; other site 526222010188 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 526222010189 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 526222010190 dimer interface [polypeptide binding]; other site 526222010191 putative functional site; other site 526222010192 putative MPT binding site; other site 526222010193 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 526222010194 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 526222010195 putative active site [active] 526222010196 PhoH-like protein; Region: PhoH; cl17668 526222010197 DnaA N-terminal domain; Region: DnaA_N; pfam11638 526222010198 DnaA N-terminal domain; Region: DnaA_N; pfam11638 526222010199 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 526222010200 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 526222010201 ATP binding site [chemical binding]; other site 526222010202 Walker A motif; other site 526222010203 Walker B motif; other site 526222010204 arginine finger; other site 526222010205 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 526222010206 DnaA box-binding interface [nucleotide binding]; other site 526222010207 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 526222010208 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 526222010209 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 526222010210 G1 box; other site 526222010211 putative GEF interaction site [polypeptide binding]; other site 526222010212 GTP/Mg2+ binding site [chemical binding]; other site 526222010213 Switch I region; other site 526222010214 G2 box; other site 526222010215 G3 box; other site 526222010216 Switch II region; other site 526222010217 G4 box; other site 526222010218 G5 box; other site 526222010219 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 526222010220 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 526222010221 PAS domain; Region: PAS_9; pfam13426 526222010222 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 526222010223 putative active site [active] 526222010224 heme pocket [chemical binding]; other site 526222010225 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 526222010226 PAS fold; Region: PAS_3; pfam08447 526222010227 putative active site [active] 526222010228 heme pocket [chemical binding]; other site 526222010229 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 526222010230 dimer interface [polypeptide binding]; other site 526222010231 phosphorylation site [posttranslational modification] 526222010232 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 526222010233 ATP binding site [chemical binding]; other site 526222010234 Mg2+ binding site [ion binding]; other site 526222010235 G-X-G motif; other site 526222010236 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 526222010237 active site 526222010238 homotetramer interface [polypeptide binding]; other site 526222010239 homodimer interface [polypeptide binding]; other site 526222010240 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 526222010241 multifunctional aminopeptidase A; Provisional; Region: PRK00913 526222010242 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 526222010243 interface (dimer of trimers) [polypeptide binding]; other site 526222010244 Substrate-binding/catalytic site; other site 526222010245 Zn-binding sites [ion binding]; other site 526222010246 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 526222010247 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222010248 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 526222010249 anti sigma factor interaction site; other site 526222010250 regulatory phosphorylation site [posttranslational modification]; other site 526222010251 4Fe-4S binding domain; Region: Fer4; pfam00037 526222010252 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222010253 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222010254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010255 active site 526222010256 phosphorylation site [posttranslational modification] 526222010257 intermolecular recognition site; other site 526222010258 dimerization interface [polypeptide binding]; other site 526222010259 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010260 Zn2+ binding site [ion binding]; other site 526222010261 Mg2+ binding site [ion binding]; other site 526222010262 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 526222010263 substrate binding site [chemical binding]; other site 526222010264 Protein of unknown function (DUF401); Region: DUF401; cl00830 526222010265 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 526222010266 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 526222010267 TPR motif; other site 526222010268 binding surface 526222010269 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 526222010270 binding surface 526222010271 TPR repeat; Region: TPR_11; pfam13414 526222010272 TPR motif; other site 526222010273 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222010274 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 526222010275 Ligand binding site; other site 526222010276 Putative Catalytic site; other site 526222010277 DXD motif; other site 526222010278 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 526222010279 Amidinotransferase; Region: Amidinotransf; cl12043 526222010280 shikimate kinase II; Reviewed; Region: aroL; cl17327 526222010281 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 526222010282 S-adenosylmethionine binding site [chemical binding]; other site 526222010283 Cobalt transport protein; Region: CbiQ; cl00463 526222010284 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 526222010285 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 526222010286 Walker A/P-loop; other site 526222010287 ATP binding site [chemical binding]; other site 526222010288 Q-loop/lid; other site 526222010289 ABC transporter signature motif; other site 526222010290 Walker B; other site 526222010291 D-loop; other site 526222010292 H-loop/switch region; other site 526222010293 3D domain; Region: 3D; cl01439 526222010294 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 526222010295 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 526222010296 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 526222010297 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 526222010298 RNA binding site [nucleotide binding]; other site 526222010299 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 526222010300 binding surface 526222010301 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222010302 TPR motif; other site 526222010303 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 526222010304 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222010305 DNA-binding site [nucleotide binding]; DNA binding site 526222010306 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 526222010307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222010308 homodimer interface [polypeptide binding]; other site 526222010309 catalytic residue [active] 526222010310 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 526222010311 Predicted membrane protein [Function unknown]; Region: COG4392 526222010312 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010313 Zn2+ binding site [ion binding]; other site 526222010314 Mg2+ binding site [ion binding]; other site 526222010315 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 526222010316 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 526222010317 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 526222010318 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 526222010319 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 526222010320 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222010321 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 526222010322 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 526222010323 DctM-like transporters; Region: DctM; pfam06808 526222010324 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 526222010325 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 526222010326 Metal-binding active site; metal-binding site 526222010327 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 526222010328 active site 526222010329 Zn binding site [ion binding]; other site 526222010330 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 526222010331 adenylosuccinate lyase; Provisional; Region: PRK07492 526222010332 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 526222010333 tetramer interface [polypeptide binding]; other site 526222010334 active site 526222010335 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 526222010336 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 526222010337 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 526222010338 NlpC/P60 family; Region: NLPC_P60; pfam00877 526222010339 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12667 526222010340 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 526222010341 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 526222010342 NADH dehydrogenase; Region: NADHdh; cl00469 526222010343 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 526222010344 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 526222010345 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 526222010346 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 526222010347 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222010348 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222010349 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 526222010350 FtsX-like permease family; Region: FtsX; pfam02687 526222010351 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222010352 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 526222010353 Walker A/P-loop; other site 526222010354 ATP binding site [chemical binding]; other site 526222010355 Q-loop/lid; other site 526222010356 ABC transporter signature motif; other site 526222010357 Walker B; other site 526222010358 D-loop; other site 526222010359 H-loop/switch region; other site 526222010360 macrolide transporter subunit MacA; Provisional; Region: PRK11578 526222010361 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222010362 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222010363 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 526222010364 salt bridge; other site 526222010365 non-specific DNA binding site [nucleotide binding]; other site 526222010366 sequence-specific DNA binding site [nucleotide binding]; other site 526222010367 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 526222010368 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 526222010369 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 526222010370 RNA binding surface [nucleotide binding]; other site 526222010371 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 526222010372 active site 526222010373 DctM-like transporters; Region: DctM; pfam06808 526222010374 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 526222010375 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 526222010376 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222010377 Predicted integral membrane protein [Function unknown]; Region: COG5616 526222010378 Family description; Region: VCBS; pfam13517 526222010379 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 526222010380 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 526222010381 S-adenosylmethionine binding site [chemical binding]; other site 526222010382 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 526222010383 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 526222010384 putative active site; other site 526222010385 catalytic residue [active] 526222010386 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 526222010387 putative active site [active] 526222010388 putative metal binding residues [ion binding]; other site 526222010389 signature motif; other site 526222010390 putative triphosphate binding site [ion binding]; other site 526222010391 dimer interface [polypeptide binding]; other site 526222010392 Uncharacterized conserved protein [Function unknown]; Region: COG1359 526222010393 Helix-turn-helix domain; Region: HTH_18; pfam12833 526222010394 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222010395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 526222010396 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 526222010397 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 526222010398 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 526222010399 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 526222010400 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 526222010401 conserved cys residue [active] 526222010402 N-acetyltransferase; Region: Acetyltransf_2; cl00949 526222010403 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 526222010404 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222010405 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 526222010406 S-adenosylmethionine binding site [chemical binding]; other site 526222010407 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010408 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 526222010409 ATP binding site [chemical binding]; other site 526222010410 Mg2+ binding site [ion binding]; other site 526222010411 G-X-G motif; other site 526222010412 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 526222010413 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222010414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010415 active site 526222010416 phosphorylation site [posttranslational modification] 526222010417 intermolecular recognition site; other site 526222010418 dimerization interface [polypeptide binding]; other site 526222010419 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010420 Zn2+ binding site [ion binding]; other site 526222010421 Mg2+ binding site [ion binding]; other site 526222010422 PAS domain S-box; Region: sensory_box; TIGR00229 526222010423 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 526222010424 putative active site [active] 526222010425 heme pocket [chemical binding]; other site 526222010426 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222010427 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 526222010428 putative active site [active] 526222010429 heme pocket [chemical binding]; other site 526222010430 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 526222010431 dimer interface [polypeptide binding]; other site 526222010432 phosphorylation site [posttranslational modification] 526222010433 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 526222010434 ATP binding site [chemical binding]; other site 526222010435 Mg2+ binding site [ion binding]; other site 526222010436 G-X-G motif; other site 526222010437 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010438 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010439 active site 526222010440 phosphorylation site [posttranslational modification] 526222010441 intermolecular recognition site; other site 526222010442 dimerization interface [polypeptide binding]; other site 526222010443 Hpt domain; Region: Hpt; pfam01627 526222010444 putative binding surface; other site 526222010445 active site 526222010446 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 526222010447 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 526222010448 PhnA protein; Region: PhnA; pfam03831 526222010449 Cache domain; Region: Cache_1; pfam02743 526222010450 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 526222010451 dimerization interface [polypeptide binding]; other site 526222010452 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010453 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010454 dimer interface [polypeptide binding]; other site 526222010455 putative CheW interface [polypeptide binding]; other site 526222010456 Cache domain; Region: Cache_1; pfam02743 526222010457 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 526222010458 dimerization interface [polypeptide binding]; other site 526222010459 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010460 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010461 dimer interface [polypeptide binding]; other site 526222010462 putative CheW interface [polypeptide binding]; other site 526222010463 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 526222010464 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 526222010465 active site 526222010466 catalytic tetrad [active] 526222010467 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 526222010468 DNA binding site [nucleotide binding] 526222010469 active site 526222010470 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 526222010471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222010472 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222010473 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222010474 Hemerythrin; Region: Hemerythrin; cd12107 526222010475 Fe binding site [ion binding]; other site 526222010476 EamA-like transporter family; Region: EamA; pfam00892 526222010477 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222010478 EamA-like transporter family; Region: EamA; pfam00892 526222010479 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 526222010480 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 526222010481 ligand binding site [chemical binding]; other site 526222010482 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010483 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 526222010484 dimerization interface [polypeptide binding]; other site 526222010485 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 526222010486 dimer interface [polypeptide binding]; other site 526222010487 phosphorylation site [posttranslational modification] 526222010488 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 526222010489 ATP binding site [chemical binding]; other site 526222010490 Mg2+ binding site [ion binding]; other site 526222010491 G-X-G motif; other site 526222010492 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010494 active site 526222010495 phosphorylation site [posttranslational modification] 526222010496 intermolecular recognition site; other site 526222010497 dimerization interface [polypeptide binding]; other site 526222010498 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 526222010499 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 526222010500 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 526222010501 active site 526222010502 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 526222010503 domain_subunit interface; other site 526222010504 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 526222010505 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222010506 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 526222010507 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 526222010508 4Fe-4S binding domain; Region: Fer4; pfam00037 526222010509 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 526222010510 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 526222010511 phosphate binding site [ion binding]; other site 526222010512 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 526222010513 putative active site [active] 526222010514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222010515 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222010516 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 526222010517 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222010518 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010519 Zn2+ binding site [ion binding]; other site 526222010520 Mg2+ binding site [ion binding]; other site 526222010521 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 526222010522 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 526222010523 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 526222010524 META domain; Region: META; pfam03724 526222010525 PAS fold; Region: PAS_4; pfam08448 526222010526 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010527 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 526222010528 ATP binding site [chemical binding]; other site 526222010529 Mg2+ binding site [ion binding]; other site 526222010530 G-X-G motif; other site 526222010531 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 526222010532 active site 526222010533 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 526222010534 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 526222010535 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222010536 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 526222010537 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222010538 Late competence development protein ComFB; Region: ComFB; pfam10719 526222010539 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222010540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010541 active site 526222010542 phosphorylation site [posttranslational modification] 526222010543 dimerization interface [polypeptide binding]; other site 526222010544 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010546 active site 526222010547 phosphorylation site [posttranslational modification] 526222010548 intermolecular recognition site; other site 526222010549 dimerization interface [polypeptide binding]; other site 526222010550 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222010551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222010552 metal binding site [ion binding]; metal-binding site 526222010553 active site 526222010554 I-site; other site 526222010555 DGC domain; Region: DGC; cl01742 526222010556 Predicted permeases [General function prediction only]; Region: COG0701 526222010557 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 526222010558 dimerization interface [polypeptide binding]; other site 526222010559 putative DNA binding site [nucleotide binding]; other site 526222010560 putative Zn2+ binding site [ion binding]; other site 526222010561 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 526222010562 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 526222010563 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222010564 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 526222010565 LuxQ, periplasmic; Region: LuxQ-periplasm; pfam09308 526222010566 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 526222010567 PAS fold; Region: PAS_4; pfam08448 526222010568 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 526222010569 putative active site [active] 526222010570 heme pocket [chemical binding]; other site 526222010571 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222010572 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 526222010573 putative active site [active] 526222010574 heme pocket [chemical binding]; other site 526222010575 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 526222010576 dimer interface [polypeptide binding]; other site 526222010577 phosphorylation site [posttranslational modification] 526222010578 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 526222010579 ATP binding site [chemical binding]; other site 526222010580 Mg2+ binding site [ion binding]; other site 526222010581 G-X-G motif; other site 526222010582 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222010583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010584 active site 526222010585 phosphorylation site [posttranslational modification] 526222010586 intermolecular recognition site; other site 526222010587 dimerization interface [polypeptide binding]; other site 526222010588 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222010589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222010590 metal binding site [ion binding]; metal-binding site 526222010591 active site 526222010592 I-site; other site 526222010593 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 526222010594 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222010595 substrate binding pocket [chemical binding]; other site 526222010596 membrane-bound complex binding site; other site 526222010597 hinge residues; other site 526222010598 GAF domain; Region: GAF_3; pfam13492 526222010599 GAF domain; Region: GAF_2; pfam13185 526222010600 PAS domain S-box; Region: sensory_box; TIGR00229 526222010601 PAS domain; Region: PAS_8; pfam13188 526222010602 PAS fold; Region: PAS_7; pfam12860 526222010603 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222010604 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 526222010605 putative active site [active] 526222010606 heme pocket [chemical binding]; other site 526222010607 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 526222010608 dimer interface [polypeptide binding]; other site 526222010609 phosphorylation site [posttranslational modification] 526222010610 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 526222010611 ATP binding site [chemical binding]; other site 526222010612 Mg2+ binding site [ion binding]; other site 526222010613 G-X-G motif; other site 526222010614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010615 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010616 active site 526222010617 phosphorylation site [posttranslational modification] 526222010618 intermolecular recognition site; other site 526222010619 dimerization interface [polypeptide binding]; other site 526222010620 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010621 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010622 active site 526222010623 phosphorylation site [posttranslational modification] 526222010624 intermolecular recognition site; other site 526222010625 dimerization interface [polypeptide binding]; other site 526222010626 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 526222010627 putative binding surface; other site 526222010628 active site 526222010629 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 526222010630 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 526222010631 hexamer interface [polypeptide binding]; other site 526222010632 ligand binding site [chemical binding]; other site 526222010633 putative active site [active] 526222010634 NAD(P) binding site [chemical binding]; other site 526222010635 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 526222010636 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 526222010637 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 526222010638 alanine racemase; Reviewed; Region: alr; PRK00053 526222010639 active site 526222010640 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 526222010641 dimer interface [polypeptide binding]; other site 526222010642 substrate binding site [chemical binding]; other site 526222010643 catalytic residues [active] 526222010644 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 526222010645 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010646 dimer interface [polypeptide binding]; other site 526222010647 conserved gate region; other site 526222010648 putative PBP binding loops; other site 526222010649 ABC-ATPase subunit interface; other site 526222010650 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010651 dimer interface [polypeptide binding]; other site 526222010652 conserved gate region; other site 526222010653 putative PBP binding loops; other site 526222010654 ABC-ATPase subunit interface; other site 526222010655 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 526222010656 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222010657 Walker A/P-loop; other site 526222010658 ATP binding site [chemical binding]; other site 526222010659 Q-loop/lid; other site 526222010660 ABC transporter signature motif; other site 526222010661 Walker B; other site 526222010662 D-loop; other site 526222010663 H-loop/switch region; other site 526222010664 TOBE domain; Region: TOBE_2; pfam08402 526222010665 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 526222010666 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 526222010667 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 526222010668 Na2 binding site [ion binding]; other site 526222010669 putative substrate binding site 1 [chemical binding]; other site 526222010670 Na binding site 1 [ion binding]; other site 526222010671 putative substrate binding site 2 [chemical binding]; other site 526222010672 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222010673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010674 active site 526222010675 phosphorylation site [posttranslational modification] 526222010676 intermolecular recognition site; other site 526222010677 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 526222010678 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010679 Zn2+ binding site [ion binding]; other site 526222010680 Mg2+ binding site [ion binding]; other site 526222010681 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 526222010682 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 526222010683 PAS domain; Region: PAS_9; pfam13426 526222010684 putative active site [active] 526222010685 heme pocket [chemical binding]; other site 526222010686 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010687 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 526222010688 ATP binding site [chemical binding]; other site 526222010689 Mg2+ binding site [ion binding]; other site 526222010690 G-X-G motif; other site 526222010691 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 526222010692 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 526222010693 Sulfate transporter family; Region: Sulfate_transp; pfam00916 526222010694 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 526222010695 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 526222010696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222010697 Coenzyme A binding pocket [chemical binding]; other site 526222010698 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 526222010699 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 526222010700 FeS/SAM binding site; other site 526222010701 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 526222010702 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222010703 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 526222010704 Walker A/P-loop; other site 526222010705 ATP binding site [chemical binding]; other site 526222010706 Q-loop/lid; other site 526222010707 ABC transporter signature motif; other site 526222010708 Walker B; other site 526222010709 D-loop; other site 526222010710 H-loop/switch region; other site 526222010711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010712 dimer interface [polypeptide binding]; other site 526222010713 conserved gate region; other site 526222010714 putative PBP binding loops; other site 526222010715 ABC-ATPase subunit interface; other site 526222010716 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 526222010717 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222010718 substrate binding pocket [chemical binding]; other site 526222010719 membrane-bound complex binding site; other site 526222010720 hinge residues; other site 526222010721 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222010722 PAS domain S-box; Region: sensory_box; TIGR00229 526222010723 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 526222010724 putative active site [active] 526222010725 heme pocket [chemical binding]; other site 526222010726 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 526222010727 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 526222010728 DNA binding residues [nucleotide binding] 526222010729 dimerization interface [polypeptide binding]; other site 526222010730 Protein of unknown function (DUF554); Region: DUF554; pfam04474 526222010731 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 526222010732 dimerization interface [polypeptide binding]; other site 526222010733 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 526222010734 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 526222010735 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 526222010736 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 526222010737 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010738 Zn2+ binding site [ion binding]; other site 526222010739 Mg2+ binding site [ion binding]; other site 526222010740 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222010741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010742 active site 526222010743 phosphorylation site [posttranslational modification] 526222010744 intermolecular recognition site; other site 526222010745 dimerization interface [polypeptide binding]; other site 526222010746 HD domain; Region: HD_5; pfam13487 526222010747 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 526222010748 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 526222010749 inhibitor-cofactor binding pocket; inhibition site 526222010750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222010751 catalytic residue [active] 526222010752 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 526222010753 Two component regulator propeller; Region: Reg_prop; pfam07494 526222010754 Two component regulator propeller; Region: Reg_prop; pfam07494 526222010755 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 526222010756 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010757 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 526222010758 dimer interface [polypeptide binding]; other site 526222010759 phosphorylation site [posttranslational modification] 526222010760 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 526222010761 ATP binding site [chemical binding]; other site 526222010762 Mg2+ binding site [ion binding]; other site 526222010763 G-X-G motif; other site 526222010764 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010766 active site 526222010767 phosphorylation site [posttranslational modification] 526222010768 intermolecular recognition site; other site 526222010769 dimerization interface [polypeptide binding]; other site 526222010770 Uncharacterized conserved protein [Function unknown]; Region: COG0432 526222010771 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 526222010772 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222010773 putative active site [active] 526222010774 heme pocket [chemical binding]; other site 526222010775 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222010776 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 526222010777 putative active site [active] 526222010778 heme pocket [chemical binding]; other site 526222010779 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 526222010780 dimer interface [polypeptide binding]; other site 526222010781 phosphorylation site [posttranslational modification] 526222010782 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 526222010783 ATP binding site [chemical binding]; other site 526222010784 Mg2+ binding site [ion binding]; other site 526222010785 G-X-G motif; other site 526222010786 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222010787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010788 active site 526222010789 phosphorylation site [posttranslational modification] 526222010790 intermolecular recognition site; other site 526222010791 dimerization interface [polypeptide binding]; other site 526222010792 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 526222010793 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 526222010794 PGAP1-like protein; Region: PGAP1; pfam07819 526222010795 HEAT repeats; Region: HEAT_2; pfam13646 526222010796 HEAT repeats; Region: HEAT_2; pfam13646 526222010797 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222010798 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010799 active site 526222010800 phosphorylation site [posttranslational modification] 526222010801 intermolecular recognition site; other site 526222010802 dimerization interface [polypeptide binding]; other site 526222010803 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 526222010804 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 526222010805 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 526222010806 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 526222010807 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 526222010808 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 526222010809 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 526222010810 Cl- selectivity filter; other site 526222010811 Cl- binding residues [ion binding]; other site 526222010812 pore gating glutamate residue; other site 526222010813 dimer interface [polypeptide binding]; other site 526222010814 FOG: CBS domain [General function prediction only]; Region: COG0517 526222010815 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 526222010816 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222010817 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010818 Zn2+ binding site [ion binding]; other site 526222010819 Mg2+ binding site [ion binding]; other site 526222010820 Predicted permeases [General function prediction only]; Region: COG0679 526222010821 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 526222010822 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 526222010823 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222010824 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 526222010825 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 526222010826 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222010827 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 526222010828 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 526222010829 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 526222010830 active site 526222010831 PHP Thumb interface [polypeptide binding]; other site 526222010832 metal binding site [ion binding]; metal-binding site 526222010833 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 526222010834 generic binding surface II; other site 526222010835 generic binding surface I; other site 526222010836 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 526222010837 active site 526222010838 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 526222010839 putative active site [active] 526222010840 dimerization interface [polypeptide binding]; other site 526222010841 putative tRNAtyr binding site [nucleotide binding]; other site 526222010842 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 526222010843 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 526222010844 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 526222010845 anti sigma factor interaction site; other site 526222010846 regulatory phosphorylation site [posttranslational modification]; other site 526222010847 Protein of unknown function (DUF342); Region: DUF342; pfam03961 526222010848 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 526222010849 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222010850 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 526222010851 flagellar motor protein MotS; Reviewed; Region: PRK06925 526222010852 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222010853 ligand binding site [chemical binding]; other site 526222010854 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 526222010855 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 526222010856 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 526222010857 CHASE4 domain; Region: CHASE4; pfam05228 526222010858 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010859 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 526222010860 dimer interface [polypeptide binding]; other site 526222010861 phosphorylation site [posttranslational modification] 526222010862 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 526222010863 ATP binding site [chemical binding]; other site 526222010864 Mg2+ binding site [ion binding]; other site 526222010865 G-X-G motif; other site 526222010866 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 526222010867 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 526222010868 active site 526222010869 HIGH motif; other site 526222010870 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 526222010871 KMSKS motif; other site 526222010872 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 526222010873 tRNA binding surface [nucleotide binding]; other site 526222010874 anticodon binding site; other site 526222010875 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 526222010876 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 526222010877 substrate binding site; other site 526222010878 dimer interface; other site 526222010879 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 526222010880 homotrimer interaction site [polypeptide binding]; other site 526222010881 zinc binding site [ion binding]; other site 526222010882 CDP-binding sites; other site 526222010883 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 526222010884 Putative zinc ribbon domain; Region: DUF164; pfam02591 526222010885 Uncharacterized conserved protein [Function unknown]; Region: COG0327 526222010886 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 526222010887 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 526222010888 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 526222010889 active site 526222010890 HIGH motif; other site 526222010891 nucleotide binding site [chemical binding]; other site 526222010892 CAAX protease self-immunity; Region: Abi; pfam02517 526222010893 Flagellin N-methylase; Region: FliB; pfam03692 526222010894 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 526222010895 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 526222010896 active site 526222010897 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 526222010898 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222010899 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222010900 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 526222010901 dimerization interface [polypeptide binding]; other site 526222010902 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 526222010903 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 526222010904 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 526222010905 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222010906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010907 dimer interface [polypeptide binding]; other site 526222010908 conserved gate region; other site 526222010909 putative PBP binding loops; other site 526222010910 ABC-ATPase subunit interface; other site 526222010911 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010912 dimer interface [polypeptide binding]; other site 526222010913 conserved gate region; other site 526222010914 putative PBP binding loops; other site 526222010915 ABC-ATPase subunit interface; other site 526222010916 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222010917 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 526222010918 substrate binding pocket [chemical binding]; other site 526222010919 membrane-bound complex binding site; other site 526222010920 hinge residues; other site 526222010921 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222010922 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 526222010923 Walker A/P-loop; other site 526222010924 ATP binding site [chemical binding]; other site 526222010925 Q-loop/lid; other site 526222010926 ABC transporter signature motif; other site 526222010927 Walker B; other site 526222010928 D-loop; other site 526222010929 H-loop/switch region; other site 526222010930 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222010931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222010932 active site 526222010933 phosphorylation site [posttranslational modification] 526222010934 intermolecular recognition site; other site 526222010935 dimerization interface [polypeptide binding]; other site 526222010936 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 526222010937 Walker A motif; other site 526222010938 ATP binding site [chemical binding]; other site 526222010939 Walker B motif; other site 526222010940 arginine finger; other site 526222010941 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222010942 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 526222010943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 526222010944 Walker A/P-loop; other site 526222010945 ATP binding site [chemical binding]; other site 526222010946 Q-loop/lid; other site 526222010947 ABC transporter signature motif; other site 526222010948 Walker B; other site 526222010949 D-loop; other site 526222010950 H-loop/switch region; other site 526222010951 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 526222010952 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010953 dimer interface [polypeptide binding]; other site 526222010954 conserved gate region; other site 526222010955 putative PBP binding loops; other site 526222010956 ABC-ATPase subunit interface; other site 526222010957 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010958 dimer interface [polypeptide binding]; other site 526222010959 conserved gate region; other site 526222010960 putative PBP binding loops; other site 526222010961 ABC-ATPase subunit interface; other site 526222010962 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 526222010963 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 526222010964 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 526222010965 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 526222010966 dimerization interface [polypeptide binding]; other site 526222010967 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010968 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010969 dimer interface [polypeptide binding]; other site 526222010970 putative CheW interface [polypeptide binding]; other site 526222010971 seryl-tRNA synthetase; Provisional; Region: PRK05431 526222010972 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 526222010973 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 526222010974 dimer interface [polypeptide binding]; other site 526222010975 active site 526222010976 motif 1; other site 526222010977 motif 2; other site 526222010978 motif 3; other site 526222010979 Competence-damaged protein; Region: CinA; pfam02464 526222010980 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 526222010981 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 526222010982 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 526222010983 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 526222010984 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 526222010985 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 526222010986 protein binding site [polypeptide binding]; other site 526222010987 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 526222010988 heat shock protein HtpX; Provisional; Region: PRK03982 526222010989 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 526222010990 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 526222010991 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222010992 putative active site [active] 526222010993 heme pocket [chemical binding]; other site 526222010994 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 526222010995 putative active site [active] 526222010996 heme pocket [chemical binding]; other site 526222010997 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010998 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 526222010999 ATP binding site [chemical binding]; other site 526222011000 Mg2+ binding site [ion binding]; other site 526222011001 G-X-G motif; other site 526222011002 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 526222011003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011004 active site 526222011005 dimerization interface [polypeptide binding]; other site 526222011006 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 526222011007 binding surface 526222011008 TPR motif; other site 526222011009 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222011010 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 526222011011 TPR motif; other site 526222011012 TPR repeat; Region: TPR_11; pfam13414 526222011013 binding surface 526222011014 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 526222011015 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 526222011016 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 526222011017 tandem repeat interface [polypeptide binding]; other site 526222011018 oligomer interface [polypeptide binding]; other site 526222011019 active site residues [active] 526222011020 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 526222011021 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 526222011022 RNA binding site [nucleotide binding]; other site 526222011023 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 526222011024 RNA binding site [nucleotide binding]; other site 526222011025 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 526222011026 RNA binding site [nucleotide binding]; other site 526222011027 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 526222011028 RNA binding site [nucleotide binding]; other site 526222011029 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 526222011030 RNA binding site [nucleotide binding]; other site 526222011031 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 526222011032 RNA binding site [nucleotide binding]; other site 526222011033 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 526222011034 PhoU domain; Region: PhoU; pfam01895 526222011035 PhoU domain; Region: PhoU; pfam01895 526222011036 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 526222011037 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 526222011038 Walker A/P-loop; other site 526222011039 ATP binding site [chemical binding]; other site 526222011040 Q-loop/lid; other site 526222011041 ABC transporter signature motif; other site 526222011042 Walker B; other site 526222011043 D-loop; other site 526222011044 H-loop/switch region; other site 526222011045 DsrE/DsrF-like family; Region: DrsE; cl00672 526222011046 AMIN domain; Region: AMIN; pfam11741 526222011047 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 526222011048 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 526222011049 homodimer interface [polypeptide binding]; other site 526222011050 active site pocket [active] 526222011051 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 526222011052 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 526222011053 flagellar motor protein MotS; Reviewed; Region: PRK06925 526222011054 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222011055 ligand binding site [chemical binding]; other site 526222011056 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222011057 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011058 active site 526222011059 phosphorylation site [posttranslational modification] 526222011060 intermolecular recognition site; other site 526222011061 PAS fold; Region: PAS; pfam00989 526222011062 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 526222011063 putative active site [active] 526222011064 heme pocket [chemical binding]; other site 526222011065 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222011066 PAS domain; Region: PAS; smart00091 526222011067 putative active site [active] 526222011068 heme pocket [chemical binding]; other site 526222011069 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 526222011070 dimer interface [polypeptide binding]; other site 526222011071 phosphorylation site [posttranslational modification] 526222011072 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 526222011073 ATP binding site [chemical binding]; other site 526222011074 Mg2+ binding site [ion binding]; other site 526222011075 G-X-G motif; other site 526222011076 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 526222011077 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 526222011078 hexamer interface [polypeptide binding]; other site 526222011079 ligand binding site [chemical binding]; other site 526222011080 putative active site [active] 526222011081 NAD(P) binding site [chemical binding]; other site 526222011082 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011084 active site 526222011085 phosphorylation site [posttranslational modification] 526222011086 intermolecular recognition site; other site 526222011087 dimerization interface [polypeptide binding]; other site 526222011088 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 526222011089 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 526222011090 active site residue [active] 526222011091 Methylamine utilisation protein MauE; Region: MauE; pfam07291 526222011092 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 526222011093 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 526222011094 ATP binding site [chemical binding]; other site 526222011095 Mg++ binding site [ion binding]; other site 526222011096 motif III; other site 526222011097 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 526222011098 nucleotide binding region [chemical binding]; other site 526222011099 ATP-binding site [chemical binding]; other site 526222011100 aspartate aminotransferase; Provisional; Region: PRK06836 526222011101 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 526222011102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011103 homodimer interface [polypeptide binding]; other site 526222011104 catalytic residue [active] 526222011105 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222011106 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222011107 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 526222011108 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 526222011109 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 526222011110 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 526222011111 dimer interface [polypeptide binding]; other site 526222011112 phosphorylation site [posttranslational modification] 526222011113 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 526222011114 ATP binding site [chemical binding]; other site 526222011115 Mg2+ binding site [ion binding]; other site 526222011116 G-X-G motif; other site 526222011117 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 526222011118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011119 active site 526222011120 phosphorylation site [posttranslational modification] 526222011121 intermolecular recognition site; other site 526222011122 dimerization interface [polypeptide binding]; other site 526222011123 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 526222011124 DNA binding site [nucleotide binding] 526222011125 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222011126 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222011127 putative substrate translocation pore; other site 526222011128 Protein of unknown function DUF45; Region: DUF45; pfam01863 526222011129 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 526222011130 anti sigma factor interaction site; other site 526222011131 regulatory phosphorylation site [posttranslational modification]; other site 526222011132 Thioredoxin; Region: Thioredoxin_4; cl17273 526222011133 CheD chemotactic sensory transduction; Region: CheD; cl00810 526222011134 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 526222011135 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; cl00086 526222011136 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 526222011137 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 526222011138 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 526222011139 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 526222011140 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222011141 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222011142 Zn2+ binding site [ion binding]; other site 526222011143 Mg2+ binding site [ion binding]; other site 526222011144 Archaeal ATPase; Region: Arch_ATPase; pfam01637 526222011145 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 526222011146 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 526222011147 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 526222011148 homodimer interface [polypeptide binding]; other site 526222011149 NADP binding site [chemical binding]; other site 526222011150 substrate binding site [chemical binding]; other site 526222011151 enolase; Provisional; Region: eno; PRK00077 526222011152 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 526222011153 dimer interface [polypeptide binding]; other site 526222011154 metal binding site [ion binding]; metal-binding site 526222011155 substrate binding pocket [chemical binding]; other site 526222011156 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 526222011157 nucleotide binding site [chemical binding]; other site 526222011158 Type III pantothenate kinase; Region: Pan_kinase; cl17198 526222011159 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 526222011160 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222011161 DNA binding residues [nucleotide binding] 526222011162 heat shock protein 90; Provisional; Region: PRK05218 526222011163 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 526222011164 ATP binding site [chemical binding]; other site 526222011165 Mg2+ binding site [ion binding]; other site 526222011166 G-X-G motif; other site 526222011167 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; cl00086 526222011168 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011170 active site 526222011171 phosphorylation site [posttranslational modification] 526222011172 intermolecular recognition site; other site 526222011173 dimerization interface [polypeptide binding]; other site 526222011174 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 526222011175 AIR carboxylase; Region: AIRC; pfam00731 526222011176 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 526222011177 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 526222011178 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 526222011179 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 526222011180 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222011181 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222011182 dimer interface [polypeptide binding]; other site 526222011183 putative CheW interface [polypeptide binding]; other site 526222011184 Cache domain; Region: Cache_1; pfam02743 526222011185 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 526222011186 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 526222011187 metal binding triad; other site 526222011188 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 526222011189 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222011190 Zn2+ binding site [ion binding]; other site 526222011191 Mg2+ binding site [ion binding]; other site 526222011192 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 526222011193 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 526222011194 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 526222011195 Nitrogen regulatory protein P-II; Region: P-II; smart00938 526222011196 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 526222011197 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 526222011198 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 526222011199 putative metal binding residues [ion binding]; other site 526222011200 GAF domain; Region: GAF_3; pfam13492 526222011201 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222011202 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 526222011203 Walker A motif; other site 526222011204 ATP binding site [chemical binding]; other site 526222011205 Walker B motif; other site 526222011206 arginine finger; other site 526222011207 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222011208 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 526222011209 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 526222011210 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 526222011211 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 526222011212 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 526222011213 active site 526222011214 Zn binding site [ion binding]; other site 526222011215 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 526222011216 PAS domain; Region: PAS_9; pfam13426 526222011217 putative active site [active] 526222011218 heme pocket [chemical binding]; other site 526222011219 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222011220 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222011221 dimer interface [polypeptide binding]; other site 526222011222 putative CheW interface [polypeptide binding]; other site 526222011223 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 526222011224 UbiA prenyltransferase family; Region: UbiA; pfam01040 526222011225 Protein of unknown function, DUF606; Region: DUF606; pfam04657 526222011226 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 526222011227 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 526222011228 active site 526222011229 HIGH motif; other site 526222011230 dimer interface [polypeptide binding]; other site 526222011231 KMSKS motif; other site 526222011232 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 526222011233 RNA binding surface [nucleotide binding]; other site 526222011234 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 526222011235 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 526222011236 putative active site [active] 526222011237 metal binding site [ion binding]; metal-binding site 526222011238 homodimer binding site [polypeptide binding]; other site 526222011239 phosphodiesterase; Provisional; Region: PRK12704 526222011240 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222011241 Zn2+ binding site [ion binding]; other site 526222011242 Mg2+ binding site [ion binding]; other site 526222011243 Cell division protein ZapA; Region: ZapA; pfam05164 526222011244 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 526222011245 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 526222011246 Substrate binding site; other site 526222011247 Mg++ binding site; other site 526222011248 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 526222011249 active site 526222011250 substrate binding site [chemical binding]; other site 526222011251 CoA binding site [chemical binding]; other site 526222011252 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 526222011253 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 526222011254 gamma subunit interface [polypeptide binding]; other site 526222011255 epsilon subunit interface [polypeptide binding]; other site 526222011256 LBP interface [polypeptide binding]; other site 526222011257 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 526222011258 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 526222011259 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 526222011260 alpha subunit interaction interface [polypeptide binding]; other site 526222011261 Walker A motif; other site 526222011262 ATP binding site [chemical binding]; other site 526222011263 Walker B motif; other site 526222011264 inhibitor binding site; inhibition site 526222011265 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 526222011266 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 526222011267 core domain interface [polypeptide binding]; other site 526222011268 delta subunit interface [polypeptide binding]; other site 526222011269 epsilon subunit interface [polypeptide binding]; other site 526222011270 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 526222011271 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 526222011272 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 526222011273 beta subunit interaction interface [polypeptide binding]; other site 526222011274 Walker A motif; other site 526222011275 ATP binding site [chemical binding]; other site 526222011276 Walker B motif; other site 526222011277 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 526222011278 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 526222011279 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 526222011280 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 526222011281 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 526222011282 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 526222011283 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 526222011284 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 526222011285 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 526222011286 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 526222011287 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 526222011288 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 526222011289 rod shape-determining protein MreC; Provisional; Region: PRK13922 526222011290 rod shape-determining protein MreC; Region: MreC; pfam04085 526222011291 rod shape-determining protein MreB; Provisional; Region: PRK13927 526222011292 MreB and similar proteins; Region: MreB_like; cd10225 526222011293 nucleotide binding site [chemical binding]; other site 526222011294 Mg binding site [ion binding]; other site 526222011295 putative protofilament interaction site [polypeptide binding]; other site 526222011296 RodZ interaction site [polypeptide binding]; other site 526222011297 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 526222011298 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 526222011299 PAS domain; Region: PAS_9; pfam13426 526222011300 putative active site [active] 526222011301 heme pocket [chemical binding]; other site 526222011302 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222011303 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222011304 metal binding site [ion binding]; metal-binding site 526222011305 active site 526222011306 I-site; other site 526222011307 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 526222011308 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222011309 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 526222011310 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 526222011311 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 526222011312 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 526222011313 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 526222011314 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 526222011315 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 526222011316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222011317 dimer interface [polypeptide binding]; other site 526222011318 conserved gate region; other site 526222011319 putative PBP binding loops; other site 526222011320 ABC-ATPase subunit interface; other site 526222011321 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 526222011322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222011323 dimer interface [polypeptide binding]; other site 526222011324 conserved gate region; other site 526222011325 putative PBP binding loops; other site 526222011326 ABC-ATPase subunit interface; other site 526222011327 PBP superfamily domain; Region: PBP_like_2; cl17296 526222011328 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 526222011329 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222011330 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 526222011331 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 526222011332 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 526222011333 active site 526222011334 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222011335 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222011336 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 526222011337 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 526222011338 S-adenosylmethionine binding site [chemical binding]; other site 526222011339 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 526222011340 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 526222011341 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 526222011342 Walker A motif; other site 526222011343 ATP binding site [chemical binding]; other site 526222011344 Walker B motif; other site 526222011345 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 526222011346 Hemerythrin; Region: Hemerythrin; cd12107 526222011347 Fe binding site [ion binding]; other site 526222011348 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 526222011349 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 526222011350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011351 homodimer interface [polypeptide binding]; other site 526222011352 catalytic residue [active] 526222011353 cobyric acid synthase; Provisional; Region: PRK00784 526222011354 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222011355 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 526222011356 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 526222011357 catalytic triad [active] 526222011358 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 526222011359 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 526222011360 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 526222011361 FeS/SAM binding site; other site 526222011362 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222011363 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 526222011364 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222011365 PAS domain S-box; Region: sensory_box; TIGR00229 526222011366 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 526222011367 putative active site [active] 526222011368 heme pocket [chemical binding]; other site 526222011369 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222011370 GAF domain; Region: GAF; pfam01590 526222011371 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222011372 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 526222011373 dimer interface [polypeptide binding]; other site 526222011374 phosphorylation site [posttranslational modification] 526222011375 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 526222011376 ATP binding site [chemical binding]; other site 526222011377 Mg2+ binding site [ion binding]; other site 526222011378 G-X-G motif; other site 526222011379 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011380 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011381 active site 526222011382 phosphorylation site [posttranslational modification] 526222011383 intermolecular recognition site; other site 526222011384 dimerization interface [polypeptide binding]; other site 526222011385 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 526222011386 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 526222011387 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 526222011388 Catalytic site [active] 526222011389 GTP-binding protein LepA; Provisional; Region: PRK05433 526222011390 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 526222011391 G1 box; other site 526222011392 putative GEF interaction site [polypeptide binding]; other site 526222011393 GTP/Mg2+ binding site [chemical binding]; other site 526222011394 Switch I region; other site 526222011395 G2 box; other site 526222011396 G3 box; other site 526222011397 Switch II region; other site 526222011398 G4 box; other site 526222011399 G5 box; other site 526222011400 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 526222011401 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 526222011402 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 526222011403 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 526222011404 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 526222011405 FAD binding pocket [chemical binding]; other site 526222011406 FAD binding motif [chemical binding]; other site 526222011407 phosphate binding motif [ion binding]; other site 526222011408 beta-alpha-beta structure motif; other site 526222011409 NAD binding pocket [chemical binding]; other site 526222011410 Iron coordination center [ion binding]; other site 526222011411 putative oxidoreductase; Provisional; Region: PRK12831 526222011412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 526222011413 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 526222011414 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 526222011415 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 526222011416 homotrimer interaction site [polypeptide binding]; other site 526222011417 putative active site [active] 526222011418 YheO-like PAS domain; Region: PAS_6; pfam08348 526222011419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 526222011420 HTH domain; Region: HTH_22; pfam13309 526222011421 GAF domain; Region: GAF_2; pfam13185 526222011422 GAF domain; Region: GAF_3; pfam13492 526222011423 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222011424 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222011425 metal binding site [ion binding]; metal-binding site 526222011426 active site 526222011427 I-site; other site 526222011428 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222011429 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 526222011430 Coenzyme A binding pocket [chemical binding]; other site 526222011431 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 526222011432 active site 526222011433 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; cd01635 526222011434 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 526222011435 PAS domain; Region: PAS_9; pfam13426 526222011436 putative active site [active] 526222011437 heme pocket [chemical binding]; other site 526222011438 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222011439 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 526222011440 Walker A motif; other site 526222011441 ATP binding site [chemical binding]; other site 526222011442 Walker B motif; other site 526222011443 arginine finger; other site 526222011444 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222011445 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 526222011446 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011447 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011448 active site 526222011449 phosphorylation site [posttranslational modification] 526222011450 intermolecular recognition site; other site 526222011451 dimerization interface [polypeptide binding]; other site 526222011452 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 526222011453 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222011454 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 526222011455 transmembrane helices; other site 526222011456 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 526222011457 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 526222011458 putative trimer interface [polypeptide binding]; other site 526222011459 putative CoA binding site [chemical binding]; other site 526222011460 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 526222011461 Cache domain; Region: Cache_1; pfam02743 526222011462 HAMP domain; Region: HAMP; pfam00672 526222011463 PAS fold; Region: PAS_4; pfam08448 526222011464 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 526222011465 putative active site [active] 526222011466 heme pocket [chemical binding]; other site 526222011467 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222011468 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222011469 dimer interface [polypeptide binding]; other site 526222011470 putative CheW interface [polypeptide binding]; other site 526222011471 Cache domain; Region: Cache_1; pfam02743 526222011472 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 526222011473 PAS fold; Region: PAS; pfam00989 526222011474 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222011475 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222011476 dimer interface [polypeptide binding]; other site 526222011477 putative CheW interface [polypeptide binding]; other site 526222011478 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 526222011479 ATP cone domain; Region: ATP-cone; pfam03477 526222011480 Class III ribonucleotide reductase; Region: RNR_III; cd01675 526222011481 effector binding site; other site 526222011482 active site 526222011483 Zn binding site [ion binding]; other site 526222011484 glycine loop; other site 526222011485 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 526222011486 dimerization interface [polypeptide binding]; other site 526222011487 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222011488 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222011489 dimer interface [polypeptide binding]; other site 526222011490 putative CheW interface [polypeptide binding]; other site 526222011491 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 526222011492 MarR family; Region: MarR; pfam01047 526222011493 Family description; Region: DsbD_2; pfam13386 526222011494 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 526222011495 putative deacylase active site [active] 526222011496 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 526222011497 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 526222011498 Walker A/P-loop; other site 526222011499 ATP binding site [chemical binding]; other site 526222011500 Q-loop/lid; other site 526222011501 ABC transporter signature motif; other site 526222011502 Walker B; other site 526222011503 D-loop; other site 526222011504 H-loop/switch region; other site 526222011505 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 526222011506 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 526222011507 Walker A/P-loop; other site 526222011508 ATP binding site [chemical binding]; other site 526222011509 Q-loop/lid; other site 526222011510 ABC transporter signature motif; other site 526222011511 Walker B; other site 526222011512 D-loop; other site 526222011513 H-loop/switch region; other site 526222011514 Cobalt transport protein; Region: CbiQ; cl00463 526222011515 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 526222011516 trimer interface [polypeptide binding]; other site 526222011517 putative Zn binding site [ion binding]; other site 526222011518 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 526222011519 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 526222011520 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 526222011521 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222011522 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 526222011523 Walker A motif; other site 526222011524 ATP binding site [chemical binding]; other site 526222011525 Walker B motif; other site 526222011526 arginine finger; other site 526222011527 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222011528 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 526222011529 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 526222011530 dimer interface [polypeptide binding]; other site 526222011531 active site 526222011532 glycine loop; other site 526222011533 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 526222011534 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222011535 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 526222011536 Outer membrane efflux protein; Region: OEP; pfam02321 526222011537 Outer membrane efflux protein; Region: OEP; pfam02321 526222011538 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 526222011539 PAS domain; Region: PAS_9; pfam13426 526222011540 putative active site [active] 526222011541 heme pocket [chemical binding]; other site 526222011542 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222011543 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222011544 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222011545 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 526222011546 Walker A/P-loop; other site 526222011547 ATP binding site [chemical binding]; other site 526222011548 Q-loop/lid; other site 526222011549 ABC transporter signature motif; other site 526222011550 Walker B; other site 526222011551 D-loop; other site 526222011552 H-loop/switch region; other site 526222011553 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222011554 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 526222011555 FtsX-like permease family; Region: FtsX; pfam02687 526222011556 putative mechanosensitive channel protein; Provisional; Region: PRK11465 526222011557 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222011558 Uncharacterized conserved protein [Function unknown]; Region: COG1284 526222011559 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 526222011560 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 526222011561 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 526222011562 EamA-like transporter family; Region: EamA; pfam00892 526222011563 EamA-like transporter family; Region: EamA; pfam00892 526222011564 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 526222011565 PAS fold; Region: PAS_3; pfam08447 526222011566 putative active site [active] 526222011567 heme pocket [chemical binding]; other site 526222011568 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222011569 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 526222011570 Walker A motif; other site 526222011571 ATP binding site [chemical binding]; other site 526222011572 Walker B motif; other site 526222011573 arginine finger; other site 526222011574 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222011575 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 526222011576 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 526222011577 EamA-like transporter family; Region: EamA; cl17759 526222011578 OsmC-like protein; Region: OsmC; pfam02566 526222011579 DsrE/DsrF-like family; Region: DrsE; cl00672 526222011580 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 526222011581 DsrH like protein; Region: DsrH; cl17347 526222011582 Uncharacterized conserved protein [Function unknown]; Region: COG3379 526222011583 Uncharacterized conserved protein [Function unknown]; Region: COG3379 526222011584 BCCT family transporter; Region: BCCT; pfam02028 526222011585 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 526222011586 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 526222011587 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 526222011588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011589 catalytic residue [active] 526222011590 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 526222011591 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 526222011592 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 526222011593 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222011594 dimer interface [polypeptide binding]; other site 526222011595 conserved gate region; other site 526222011596 putative PBP binding loops; other site 526222011597 ABC-ATPase subunit interface; other site 526222011598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222011599 dimer interface [polypeptide binding]; other site 526222011600 conserved gate region; other site 526222011601 putative PBP binding loops; other site 526222011602 ABC-ATPase subunit interface; other site 526222011603 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 526222011604 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 526222011605 Walker A/P-loop; other site 526222011606 ATP binding site [chemical binding]; other site 526222011607 Q-loop/lid; other site 526222011608 ABC transporter signature motif; other site 526222011609 Walker B; other site 526222011610 D-loop; other site 526222011611 H-loop/switch region; other site 526222011612 TOBE domain; Region: TOBE_2; pfam08402 526222011613 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 526222011614 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222011615 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222011616 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 526222011617 putative effector binding pocket; other site 526222011618 dimerization interface [polypeptide binding]; other site 526222011619 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 526222011620 Transcriptional regulators [Transcription]; Region: FadR; COG2186 526222011621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222011622 DNA-binding site [nucleotide binding]; DNA binding site 526222011623 FCD domain; Region: FCD; pfam07729 526222011624 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 526222011625 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222011626 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222011627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222011628 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 526222011629 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 526222011630 dimer interface [polypeptide binding]; other site 526222011631 active site 526222011632 metal binding site [ion binding]; metal-binding site 526222011633 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 526222011634 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 526222011635 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 526222011636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222011637 putative substrate translocation pore; other site 526222011638 Cyclophilin-like; Region: Cyclophil_like; cl17583 526222011639 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 526222011640 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 526222011641 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 526222011642 Uncharacterized conserved protein [Function unknown]; Region: COG4925 526222011643 Uncharacterized conserved protein [Function unknown]; Region: COG4925 526222011644 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 526222011645 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 526222011646 glutaminase active site [active] 526222011647 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 526222011648 dimer interface [polypeptide binding]; other site 526222011649 active site 526222011650 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 526222011651 dimer interface [polypeptide binding]; other site 526222011652 active site 526222011653 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 526222011654 active site 526222011655 dimerization interface [polypeptide binding]; other site 526222011656 PAS domain; Region: PAS_9; pfam13426 526222011657 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 526222011658 dimer interface [polypeptide binding]; other site 526222011659 phosphorylation site [posttranslational modification] 526222011660 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 526222011661 ATP binding site [chemical binding]; other site 526222011662 Mg2+ binding site [ion binding]; other site 526222011663 G-X-G motif; other site 526222011664 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 526222011665 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 526222011666 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 526222011667 FeS/SAM binding site; other site 526222011668 Peptidase family C25; Region: Peptidase_C25; pfam01364 526222011669 active site 526222011670 Sporulation related domain; Region: SPOR; pfam05036 526222011671 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222011672 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 526222011673 putative active site [active] 526222011674 Domain of unknown function (DUF202); Region: DUF202; cl09954 526222011675 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 526222011676 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 526222011677 putative active site [active] 526222011678 AMIN domain; Region: AMIN; pfam11741 526222011679 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 526222011680 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 526222011681 active site 526222011682 metal binding site [ion binding]; metal-binding site 526222011683 Soluble P-type ATPase [General function prediction only]; Region: COG4087 526222011684 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222011685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 526222011686 active site 526222011687 phosphorylation site [posttranslational modification] 526222011688 intermolecular recognition site; other site 526222011689 dimerization interface [polypeptide binding]; other site 526222011690 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011692 active site 526222011693 phosphorylation site [posttranslational modification] 526222011694 intermolecular recognition site; other site 526222011695 dimerization interface [polypeptide binding]; other site 526222011696 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222011697 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 526222011698 nucleotidyl binding site; other site 526222011699 metal binding site [ion binding]; metal-binding site 526222011700 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 526222011701 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 526222011702 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 526222011703 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 526222011704 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 526222011705 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 526222011706 putative metal binding site; other site 526222011707 WxcM-like, C-terminal; Region: FdtA; pfam05523 526222011708 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 526222011709 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 526222011710 inhibitor-cofactor binding pocket; inhibition site 526222011711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011712 catalytic residue [active] 526222011713 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 526222011714 phosphate binding site [ion binding]; other site 526222011715 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 526222011716 S-adenosylmethionine binding site [chemical binding]; other site 526222011717 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 526222011718 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 526222011719 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 526222011720 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 526222011721 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 526222011722 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 526222011723 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 526222011724 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 526222011725 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 526222011726 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 526222011727 FOG: WD40 repeat [General function prediction only]; Region: COG2319 526222011728 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222011729 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 526222011730 ATP binding site [chemical binding]; other site 526222011731 Mg2+ binding site [ion binding]; other site 526222011732 G-X-G motif; other site 526222011733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011734 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011735 active site 526222011736 phosphorylation site [posttranslational modification] 526222011737 intermolecular recognition site; other site 526222011738 dimerization interface [polypeptide binding]; other site 526222011739 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 526222011740 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 526222011741 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 526222011742 protein binding site [polypeptide binding]; other site 526222011743 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 526222011744 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 526222011745 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 526222011746 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 526222011747 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 526222011748 putative active site [active] 526222011749 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 526222011750 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 526222011751 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 526222011752 active site 526222011753 dimer interface [polypeptide binding]; other site 526222011754 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 526222011755 Ligand Binding Site [chemical binding]; other site 526222011756 Molecular Tunnel; other site 526222011757 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 526222011758 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 526222011759 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 526222011760 active site 526222011761 metal binding site [ion binding]; metal-binding site 526222011762 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 526222011763 ATP-grasp domain; Region: ATP-grasp_4; cl17255 526222011764 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222011765 extended (e) SDRs; Region: SDR_e; cd08946 526222011766 NAD(P) binding site [chemical binding]; other site 526222011767 active site 526222011768 substrate binding site [chemical binding]; other site 526222011769 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 526222011770 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222011771 WbqC-like protein family; Region: WbqC; pfam08889 526222011772 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 526222011773 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 526222011774 Ligand binding site; other site 526222011775 Putative Catalytic site; other site 526222011776 DXD motif; other site 526222011777 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 526222011778 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 526222011779 inhibitor-cofactor binding pocket; inhibition site 526222011780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011781 catalytic residue [active] 526222011782 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 526222011783 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 526222011784 NDP-hexose 2,3-dehydratase; Region: Hexose_dehydrat; pfam03559 526222011785 NDP-hexose 2,3-dehydratase; Region: Hexose_dehydrat; pfam03559 526222011786 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222011787 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 526222011788 putative ADP-binding pocket [chemical binding]; other site 526222011789 Bacterial sugar transferase; Region: Bac_transf; pfam02397 526222011790 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 526222011791 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 526222011792 putative trimer interface [polypeptide binding]; other site 526222011793 putative CoA binding site [chemical binding]; other site 526222011794 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 526222011795 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 526222011796 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 526222011797 inhibitor-cofactor binding pocket; inhibition site 526222011798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011799 catalytic residue [active] 526222011800 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 526222011801 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 526222011802 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 526222011803 NAD(P) binding site [chemical binding]; other site 526222011804 homodimer interface [polypeptide binding]; other site 526222011805 substrate binding site [chemical binding]; other site 526222011806 active site 526222011807 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 526222011808 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 526222011809 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 526222011810 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 526222011811 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 526222011812 NodB motif; other site 526222011813 active site 526222011814 metal binding site [ion binding]; metal-binding site 526222011815 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 526222011816 dimerization interface [polypeptide binding]; other site 526222011817 putative DNA binding site [nucleotide binding]; other site 526222011818 putative Zn2+ binding site [ion binding]; other site 526222011819 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 526222011820 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 526222011821 inhibitor-cofactor binding pocket; inhibition site 526222011822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011823 catalytic residue [active] 526222011824 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 526222011825 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222011826 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222011827 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 526222011828 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222011829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011830 NAD(P) binding site [chemical binding]; other site 526222011831 active site 526222011832 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 526222011833 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 526222011834 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 526222011835 Walker A/P-loop; other site 526222011836 ATP binding site [chemical binding]; other site 526222011837 Q-loop/lid; other site 526222011838 ABC transporter signature motif; other site 526222011839 Walker B; other site 526222011840 D-loop; other site 526222011841 H-loop/switch region; other site 526222011842 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 526222011843 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 526222011844 NAD(P) binding site [chemical binding]; other site 526222011845 homodimer interface [polypeptide binding]; other site 526222011846 substrate binding site [chemical binding]; other site 526222011847 active site 526222011848 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 526222011849 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 526222011850 inhibitor-cofactor binding pocket; inhibition site 526222011851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011852 catalytic residue [active] 526222011853 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 526222011854 ligand binding site; other site 526222011855 tetramer interface; other site 526222011856 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 526222011857 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 526222011858 pseudaminic acid synthase; Region: PseI; TIGR03586 526222011859 NeuB family; Region: NeuB; pfam03102 526222011860 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 526222011861 NeuB binding interface [polypeptide binding]; other site 526222011862 putative substrate binding site [chemical binding]; other site 526222011863 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 526222011864 ATP-grasp domain; Region: ATP-grasp_4; cl17255 526222011865 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 526222011866 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 526222011867 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 526222011868 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 526222011869 DNA-binding interface [nucleotide binding]; DNA binding site 526222011870 Winged helix-turn helix; Region: HTH_29; pfam13551 526222011871 putative transposase OrfB; Reviewed; Region: PHA02517 526222011872 HTH-like domain; Region: HTH_21; pfam13276 526222011873 Integrase core domain; Region: rve; pfam00665 526222011874 Integrase core domain; Region: rve_3; pfam13683 526222011875 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222011876 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 526222011877 S-adenosylmethionine binding site [chemical binding]; other site 526222011878 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 526222011879 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 526222011880 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 526222011881 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 526222011882 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 526222011883 flagellin; Validated; Region: PRK08026 526222011884 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 526222011885 Type II/IV secretion system protein; Region: T2SE; pfam00437 526222011886 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 526222011887 Walker A motif; other site 526222011888 ATP binding site [chemical binding]; other site 526222011889 Walker B motif; other site 526222011890 type II secretion system protein D; Region: type_II_gspD; TIGR02517 526222011891 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 526222011892 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 526222011893 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 526222011894 CAAX protease self-immunity; Region: Abi; pfam02517 526222011895 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222011896 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 526222011897 putative active site [active] 526222011898 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 526222011899 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 526222011900 dimer interface [polypeptide binding]; other site 526222011901 active site 526222011902 CoA binding pocket [chemical binding]; other site 526222011903 AAA domain; Region: AAA_33; pfam13671 526222011904 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 526222011905 ligand-binding site [chemical binding]; other site 526222011906 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222011907 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 526222011908 active site 526222011909 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 526222011910 homodimer interface [polypeptide binding]; other site 526222011911 DNA repair protein RadA; Provisional; Region: PRK11823 526222011912 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 526222011913 Walker A motif; other site 526222011914 ATP binding site [chemical binding]; other site 526222011915 Walker B motif; other site 526222011916 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 526222011917 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 526222011918 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 526222011919 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222011920 active site 526222011921 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222011922 Coenzyme A binding pocket [chemical binding]; other site 526222011923 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 526222011924 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 526222011925 catalytic residues [active] 526222011926 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 526222011927 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 526222011928 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 526222011929 substrate binding pocket [chemical binding]; other site 526222011930 dimer interface [polypeptide binding]; other site 526222011931 inhibitor binding site; inhibition site 526222011932 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 526222011933 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 526222011934 B12 binding site [chemical binding]; other site 526222011935 cobalt ligand [ion binding]; other site 526222011936 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 526222011937 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 526222011938 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222011939 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 526222011940 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 526222011941 DNA binding residues [nucleotide binding] 526222011942 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 526222011943 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 526222011944 binding surface 526222011945 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222011946 TPR motif; other site 526222011947 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 526222011948 TPR motif; other site 526222011949 binding surface 526222011950 TPR repeat; Region: TPR_11; pfam13414 526222011951 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 526222011952 binding surface 526222011953 TPR repeat; Region: TPR_11; pfam13414 526222011954 TPR motif; other site 526222011955 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 526222011956 TPR motif; other site 526222011957 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 526222011958 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 526222011959 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 526222011960 TPP-binding site [chemical binding]; other site 526222011961 dimer interface [polypeptide binding]; other site 526222011962 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 526222011963 PYR/PP interface [polypeptide binding]; other site 526222011964 dimer interface [polypeptide binding]; other site 526222011965 TPP binding site [chemical binding]; other site 526222011966 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 526222011967 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222011968 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 526222011969 putative active site [active] 526222011970 heme pocket [chemical binding]; other site 526222011971 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 526222011972 dimer interface [polypeptide binding]; other site 526222011973 phosphorylation site [posttranslational modification] 526222011974 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 526222011975 ATP binding site [chemical binding]; other site 526222011976 Mg2+ binding site [ion binding]; other site 526222011977 G-X-G motif; other site 526222011978 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222011980 active site 526222011981 phosphorylation site [posttranslational modification] 526222011982 intermolecular recognition site; other site 526222011983 dimerization interface [polypeptide binding]; other site 526222011984 Glucosyl transferase GtrII; Region: Glucos_trans_II; pfam14264 526222011985 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 526222011986 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 526222011987 Ligand binding site; other site 526222011988 Putative Catalytic site; other site 526222011989 DXD motif; other site 526222011990 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222011991 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 526222011992 S-adenosylmethionine binding site [chemical binding]; other site 526222011993 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 526222011994 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 526222011995 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 526222011996 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 526222011997 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 526222011998 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 526222011999 dimerization interface [polypeptide binding]; other site 526222012000 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222012001 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 526222012002 putative active site [active] 526222012003 heme pocket [chemical binding]; other site 526222012004 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 526222012005 dimer interface [polypeptide binding]; other site 526222012006 phosphorylation site [posttranslational modification] 526222012007 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 526222012008 ATP binding site [chemical binding]; other site 526222012009 Mg2+ binding site [ion binding]; other site 526222012010 G-X-G motif; other site 526222012011 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222012012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012013 active site 526222012014 phosphorylation site [posttranslational modification] 526222012015 intermolecular recognition site; other site 526222012016 dimerization interface [polypeptide binding]; other site 526222012017 PAS domain S-box; Region: sensory_box; TIGR00229 526222012018 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 526222012019 putative active site [active] 526222012020 heme pocket [chemical binding]; other site 526222012021 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222012022 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222012023 Zn2+ binding site [ion binding]; other site 526222012024 Mg2+ binding site [ion binding]; other site 526222012025 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222012026 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012027 active site 526222012028 phosphorylation site [posttranslational modification] 526222012029 intermolecular recognition site; other site 526222012030 dimerization interface [polypeptide binding]; other site 526222012031 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 526222012032 Walker A motif; other site 526222012033 ATP binding site [chemical binding]; other site 526222012034 Walker B motif; other site 526222012035 arginine finger; other site 526222012036 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 526222012037 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; cl00391 526222012038 active site clefts [active] 526222012039 zinc binding site [ion binding]; other site 526222012040 dimer interface [polypeptide binding]; other site 526222012041 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 526222012042 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 526222012043 CoA binding domain; Region: CoA_binding_2; pfam13380 526222012044 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 526222012045 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 526222012046 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 526222012047 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 526222012048 acetyl-CoA synthetase; Provisional; Region: PRK00174 526222012049 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 526222012050 active site 526222012051 CoA binding site [chemical binding]; other site 526222012052 acyl-activating enzyme (AAE) consensus motif; other site 526222012053 AMP binding site [chemical binding]; other site 526222012054 acetate binding site [chemical binding]; other site 526222012055 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 526222012056 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 526222012057 HAMP domain; Region: HAMP; pfam00672 526222012058 dimerization interface [polypeptide binding]; other site 526222012059 PAS domain; Region: PAS; smart00091 526222012060 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222012061 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 526222012062 dimer interface [polypeptide binding]; other site 526222012063 phosphorylation site [posttranslational modification] 526222012064 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 526222012065 ATP binding site [chemical binding]; other site 526222012066 Mg2+ binding site [ion binding]; other site 526222012067 G-X-G motif; other site 526222012068 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222012069 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 526222012070 phosphorylation site [posttranslational modification] 526222012071 dimer interface [polypeptide binding]; other site 526222012072 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 526222012073 ATP binding site [chemical binding]; other site 526222012074 Mg2+ binding site [ion binding]; other site 526222012075 G-X-G motif; other site 526222012076 cobalamin synthase; Reviewed; Region: cobS; PRK00235 526222012077 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 526222012078 Uncharacterized conserved protein [Function unknown]; Region: COG1284 526222012079 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 526222012080 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 526222012081 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 526222012082 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 526222012083 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 526222012084 active site 526222012085 HIGH motif; other site 526222012086 KMSK motif region; other site 526222012087 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 526222012088 tRNA binding surface [nucleotide binding]; other site 526222012089 anticodon binding site; other site 526222012090 Sporulation related domain; Region: SPOR; pfam05036 526222012091 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 526222012092 EamA-like transporter family; Region: EamA; pfam00892 526222012093 EamA-like transporter family; Region: EamA; pfam00892 526222012094 HAMP domain; Region: HAMP; pfam00672 526222012095 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222012096 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 526222012097 putative active site [active] 526222012098 heme pocket [chemical binding]; other site 526222012099 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 526222012100 dimer interface [polypeptide binding]; other site 526222012101 phosphorylation site [posttranslational modification] 526222012102 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 526222012103 ATP binding site [chemical binding]; other site 526222012104 Mg2+ binding site [ion binding]; other site 526222012105 G-X-G motif; other site 526222012106 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 526222012107 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012108 active site 526222012109 phosphorylation site [posttranslational modification] 526222012110 intermolecular recognition site; other site 526222012111 dimerization interface [polypeptide binding]; other site 526222012112 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 526222012113 DNA binding site [nucleotide binding] 526222012114 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 526222012115 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222012116 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222012117 dimer interface [polypeptide binding]; other site 526222012118 putative CheW interface [polypeptide binding]; other site 526222012119 Response regulator receiver domain; Region: Response_reg; pfam00072 526222012120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012121 active site 526222012122 phosphorylation site [posttranslational modification] 526222012123 intermolecular recognition site; other site 526222012124 dimerization interface [polypeptide binding]; other site 526222012125 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 526222012126 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 526222012127 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 526222012128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012129 active site 526222012130 phosphorylation site [posttranslational modification] 526222012131 intermolecular recognition site; other site 526222012132 dimerization interface [polypeptide binding]; other site 526222012133 CheB methylesterase; Region: CheB_methylest; pfam01339 526222012134 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 526222012135 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 526222012136 putative binding surface; other site 526222012137 active site 526222012138 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 526222012139 putative binding surface; other site 526222012140 active site 526222012141 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 526222012142 ATP binding site [chemical binding]; other site 526222012143 Mg2+ binding site [ion binding]; other site 526222012144 G-X-G motif; other site 526222012145 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 526222012146 Response regulator receiver domain; Region: Response_reg; pfam00072 526222012147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012148 active site 526222012149 phosphorylation site [posttranslational modification] 526222012150 intermolecular recognition site; other site 526222012151 dimerization interface [polypeptide binding]; other site 526222012152 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 526222012153 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 526222012154 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 526222012155 S-adenosylmethionine binding site [chemical binding]; other site 526222012156 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 526222012157 binding surface 526222012158 TPR motif; other site 526222012159 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 526222012160 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222012161 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222012162 dimer interface [polypeptide binding]; other site 526222012163 putative CheW interface [polypeptide binding]; other site 526222012164 Methyltransferase domain; Region: Methyltransf_23; pfam13489 526222012165 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 526222012166 S-adenosylmethionine binding site [chemical binding]; other site 526222012167 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 526222012168 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 526222012169 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 526222012170 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 526222012171 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 526222012172 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222012173 metal binding site [ion binding]; metal-binding site 526222012174 active site 526222012175 I-site; other site 526222012176 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222012177 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 526222012178 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 526222012179 putative glycosyl transferase; Provisional; Region: PRK10125 526222012180 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 526222012181 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222012182 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012183 active site 526222012184 phosphorylation site [posttranslational modification] 526222012185 intermolecular recognition site; other site 526222012186 dimerization interface [polypeptide binding]; other site 526222012187 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 526222012188 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 526222012189 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 526222012190 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 526222012191 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 526222012192 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 526222012193 active site 526222012194 metal binding site [ion binding]; metal-binding site 526222012195 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 526222012196 alkyl hydroperoxide reductase subunit F; Region: AhpF; TIGR03140 526222012197 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 526222012198 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222012199 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222012200 putative substrate translocation pore; other site 526222012201 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 526222012202 MarR family; Region: MarR_2; pfam12802 526222012203 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222012204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012205 active site 526222012206 phosphorylation site [posttranslational modification] 526222012207 intermolecular recognition site; other site 526222012208 dimerization interface [polypeptide binding]; other site 526222012209 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 526222012210 Walker B motif; other site 526222012211 arginine finger; other site 526222012212 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 526222012213 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 526222012214 CoA binding domain; Region: CoA_binding; pfam02629 526222012215 ATP synthase subunit C; Region: ATP-synt_C; cl00466 526222012216 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 526222012217 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 526222012218 ATP synthase I chain; Region: ATP_synt_I; pfam03899 526222012219 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 526222012220 AAA domain; Region: AAA_32; pfam13654 526222012221 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 526222012222 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 526222012223 Ion channel; Region: Ion_trans_2; pfam07885 526222012224 TrkA-N domain; Region: TrkA_N; pfam02254 526222012225 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 526222012226 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222012227 ligand binding site [chemical binding]; other site 526222012228 flexible hinge region; other site 526222012229 TIGR04076 family protein; Region: TIGR04076 526222012230 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222012231 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 526222012232 ligand binding site [chemical binding]; other site 526222012233 flexible hinge region; other site 526222012234 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 526222012235 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 526222012236 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 526222012237 Sporulation related domain; Region: SPOR; pfam05036 526222012238 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 526222012239 IHF - DNA interface [nucleotide binding]; other site 526222012240 IHF dimer interface [polypeptide binding]; other site 526222012241 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 526222012242 HIT family signature motif; other site 526222012243 catalytic residue [active] 526222012244 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 526222012245 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222012246 FeS/SAM binding site; other site 526222012247 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222012248 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 526222012249 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 526222012250 catalytic residues [active] 526222012251 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 526222012252 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 526222012253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222012254 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 526222012255 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 526222012256 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 526222012257 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 526222012258 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222012259 GAF domain; Region: GAF; pfam01590 526222012260 4Fe-4S binding domain; Region: Fer4; pfam00037 526222012261 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222012262 4Fe-4S binding domain; Region: Fer4; pfam00037 526222012263 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 526222012264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222012265 DNA-binding site [nucleotide binding]; DNA binding site 526222012266 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 526222012267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222012268 homodimer interface [polypeptide binding]; other site 526222012269 catalytic residue [active] 526222012270 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 526222012271 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 526222012272 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 526222012273 Fic/DOC family; Region: Fic; cl00960 526222012274 S-ribosylhomocysteinase; Provisional; Region: PRK02260 526222012275 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 526222012276 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 526222012277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222012278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222012279 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 526222012280 dimerization interface [polypeptide binding]; other site 526222012281 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 526222012282 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 526222012283 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 526222012284 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 526222012285 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 526222012286 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 526222012287 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 526222012288 FIST N domain; Region: FIST; pfam08495 526222012289 FIST C domain; Region: FIST_C; pfam10442 526222012290 PAS domain S-box; Region: sensory_box; TIGR00229 526222012291 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 526222012292 Response regulator receiver domain; Region: Response_reg; pfam00072 526222012293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012294 active site 526222012295 phosphorylation site [posttranslational modification] 526222012296 intermolecular recognition site; other site 526222012297 dimerization interface [polypeptide binding]; other site 526222012298 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 526222012299 Na2 binding site [ion binding]; other site 526222012300 putative substrate binding site 1 [chemical binding]; other site 526222012301 Na binding site 1 [ion binding]; other site 526222012302 putative substrate binding site 2 [chemical binding]; other site 526222012303 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 526222012304 putative FMN binding site [chemical binding]; other site 526222012305 Dienelactone hydrolase family; Region: DLH; pfam01738 526222012306 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 526222012307 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 526222012308 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 526222012309 serine/threonine transporter SstT; Provisional; Region: PRK13628 526222012310 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 526222012311 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 526222012312 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 526222012313 ATP binding site [chemical binding]; other site 526222012314 putative Mg++ binding site [ion binding]; other site 526222012315 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 526222012316 nucleotide binding region [chemical binding]; other site 526222012317 ATP-binding site [chemical binding]; other site 526222012318 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 526222012319 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 526222012320 active site 526222012321 substrate binding site [chemical binding]; other site 526222012322 catalytic site [active] 526222012323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 526222012324 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222012325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012326 active site 526222012327 phosphorylation site [posttranslational modification] 526222012328 intermolecular recognition site; other site 526222012329 dimerization interface [polypeptide binding]; other site 526222012330 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 526222012331 Walker A motif; other site 526222012332 ATP binding site [chemical binding]; other site 526222012333 Walker B motif; other site 526222012334 arginine finger; other site 526222012335 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 526222012336 dimer interface [polypeptide binding]; other site 526222012337 phosphorylation site [posttranslational modification] 526222012338 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 526222012339 ATP binding site [chemical binding]; other site 526222012340 Mg2+ binding site [ion binding]; other site 526222012341 G-X-G motif; other site 526222012342 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 526222012343 dimer interface [polypeptide binding]; other site 526222012344 active site 526222012345 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 526222012346 dimer interface [polypeptide binding]; other site 526222012347 active site 526222012348 aspartate aminotransferase; Provisional; Region: PRK05764 526222012349 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 526222012350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222012351 homodimer interface [polypeptide binding]; other site 526222012352 catalytic residue [active] 526222012353 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 526222012354 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 526222012355 Walker A/P-loop; other site 526222012356 ATP binding site [chemical binding]; other site 526222012357 Q-loop/lid; other site 526222012358 ABC transporter signature motif; other site 526222012359 Walker B; other site 526222012360 D-loop; other site 526222012361 H-loop/switch region; other site 526222012362 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 526222012363 FtsX-like permease family; Region: FtsX; pfam02687 526222012364 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 526222012365 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222012366 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 526222012367 NAD binding site [chemical binding]; other site 526222012368 putative substrate binding site 2 [chemical binding]; other site 526222012369 putative substrate binding site 1 [chemical binding]; other site 526222012370 active site 526222012371 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 526222012372 Uncharacterized conserved protein [Function unknown]; Region: COG2006 526222012373 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222012374 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 526222012375 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 526222012376 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 526222012377 motif II; other site 526222012378 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 526222012379 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 526222012380 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 526222012381 EamA-like transporter family; Region: EamA; pfam00892 526222012382 EamA-like transporter family; Region: EamA; pfam00892 526222012383 Domain of unknown function DUF39; Region: DUF39; pfam01837 526222012384 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 526222012385 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 526222012386 Walker A motif; other site 526222012387 ATP binding site [chemical binding]; other site 526222012388 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 526222012389 DnaA box-binding interface [nucleotide binding]; other site 526222012390 DNA polymerase III subunit beta; Provisional; Region: PRK14947 526222012391 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 526222012392 putative DNA binding surface [nucleotide binding]; other site 526222012393 dimer interface [polypeptide binding]; other site 526222012394 beta-clamp/clamp loader binding surface; other site 526222012395 beta-clamp/translesion DNA polymerase binding surface; other site 526222012396 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 526222012397 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 526222012398 ATP binding site [chemical binding]; other site 526222012399 Mg2+ binding site [ion binding]; other site 526222012400 G-X-G motif; other site 526222012401 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 526222012402 anchoring element; other site 526222012403 dimer interface [polypeptide binding]; other site 526222012404 ATP binding site [chemical binding]; other site 526222012405 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 526222012406 active site 526222012407 putative metal-binding site [ion binding]; other site 526222012408 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 526222012409 DNA gyrase subunit A; Validated; Region: PRK05560 526222012410 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 526222012411 CAP-like domain; other site 526222012412 active site 526222012413 primary dimer interface [polypeptide binding]; other site 526222012414 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222012415 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222012416 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222012417 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222012418 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222012419 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222012420 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222012421 hypothetical protein; Validated; Region: PRK05445 526222012422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222012423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 526222012424 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 526222012425 dimerization interface [polypeptide binding]; other site 526222012426 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 526222012427 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 526222012428 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 526222012429 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 526222012430 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 526222012431 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 526222012432 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 526222012433 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 526222012434 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 526222012435 metal binding site 2 [ion binding]; metal-binding site 526222012436 putative DNA binding helix; other site 526222012437 metal binding site 1 [ion binding]; metal-binding site 526222012438 dimer interface [polypeptide binding]; other site 526222012439 structural Zn2+ binding site [ion binding]; other site 526222012440 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 526222012441 CHASE domain; Region: CHASE; cl01369 526222012442 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 526222012443 PAS fold; Region: PAS_3; pfam08447 526222012444 putative active site [active] 526222012445 heme pocket [chemical binding]; other site 526222012446 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 526222012447 PAS domain; Region: PAS_9; pfam13426 526222012448 putative active site [active] 526222012449 heme pocket [chemical binding]; other site 526222012450 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 526222012451 PAS domain; Region: PAS_9; pfam13426 526222012452 putative active site [active] 526222012453 heme pocket [chemical binding]; other site 526222012454 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222012455 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 526222012456 dimer interface [polypeptide binding]; other site 526222012457 phosphorylation site [posttranslational modification] 526222012458 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 526222012459 ATP binding site [chemical binding]; other site 526222012460 Mg2+ binding site [ion binding]; other site 526222012461 G-X-G motif; other site 526222012462 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222012463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 526222012464 active site 526222012465 phosphorylation site [posttranslational modification] 526222012466 intermolecular recognition site; other site 526222012467 dimerization interface [polypeptide binding]; other site 526222012468 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222012469 Zn2+ binding site [ion binding]; other site 526222012470 Mg2+ binding site [ion binding]; other site 526222012471 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222012472 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 526222012473 WHG domain; Region: WHG; pfam13305 526222012474 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222012475 HlyD family secretion protein; Region: HlyD_3; pfam13437 526222012476 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222012477 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 526222012478 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222012479 Coenzyme A binding pocket [chemical binding]; other site 526222012480 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 526222012481 Hpt domain; Region: Hpt; pfam01627 526222012482 putative binding surface; other site 526222012483 active site 526222012484 DNA topoisomerase I; Validated; Region: PRK06599 526222012485 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 526222012486 active site 526222012487 interdomain interaction site; other site 526222012488 putative metal-binding site [ion binding]; other site 526222012489 nucleotide binding site [chemical binding]; other site 526222012490 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 526222012491 domain I; other site 526222012492 DNA binding groove [nucleotide binding] 526222012493 phosphate binding site [ion binding]; other site 526222012494 domain II; other site 526222012495 domain III; other site 526222012496 nucleotide binding site [chemical binding]; other site 526222012497 catalytic site [active] 526222012498 domain IV; other site 526222012499 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222012500 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222012501 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222012502 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222012503 GTPase Era; Reviewed; Region: era; PRK00089 526222012504 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 526222012505 G1 box; other site 526222012506 GTP/Mg2+ binding site [chemical binding]; other site 526222012507 Switch I region; other site 526222012508 G2 box; other site 526222012509 Switch II region; other site 526222012510 G3 box; other site 526222012511 G4 box; other site 526222012512 G5 box; other site 526222012513 KH domain; Region: KH_2; pfam07650 526222012514 G-X-X-G motif; other site 526222012515 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 526222012516 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 526222012517 catalytic residue [active] 526222012518 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 526222012519 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222012520 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 526222012521 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 526222012522 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222012523 ligand binding site [chemical binding]; other site 526222012524 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 526222012525 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222012526 ligand binding site [chemical binding]; other site 526222012527 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 526222012528 flagellar motor switch protein FliN; Region: fliN; TIGR02480 526222012529 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 526222012530 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 526222012531 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 526222012532 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 526222012533 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 526222012534 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 526222012535 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 526222012536 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 526222012537 N-acetyl-D-glucosamine binding site [chemical binding]; other site 526222012538 catalytic residue [active] 526222012539 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 526222012540 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 526222012541 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 526222012542 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 526222012543 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 526222012544 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 526222012545 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 526222012546 NAD(P) binding site [chemical binding]; other site 526222012547 catalytic residues [active] 526222012548 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 526222012549 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 526222012550 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 526222012551 NAD(P) binding site [chemical binding]; other site 526222012552 shikimate binding site; other site 526222012553 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 526222012554 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 526222012555 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 526222012556 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 526222012557 TPP-binding site [chemical binding]; other site 526222012558 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 526222012559 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 526222012560 dimer interface [polypeptide binding]; other site 526222012561 PYR/PP interface [polypeptide binding]; other site 526222012562 TPP binding site [chemical binding]; other site 526222012563 substrate binding site [chemical binding]; other site 526222012564 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222012565 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222012566 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 526222012567 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 526222012568 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 526222012569 Flavoprotein; Region: Flavoprotein; pfam02441 526222012570 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 526222012571 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 526222012572 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 526222012573 dimer interface [polypeptide binding]; other site 526222012574 active site residues [active] 526222012575 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 526222012576 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 526222012577 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 526222012578 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222012579 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 526222012580 putative NAD(P) binding site [chemical binding]; other site 526222012581 active site 526222012582 putative substrate binding site [chemical binding]; other site