-- dump date 20120504_143419 -- 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-like partition proteins; Region: parB_part; TIGR00180 526222000008 ParB-like nuclease domain; Region: ParBc; cl02129 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 GAF domain; Region: GAF_2; pfam13185 526222000014 GAF domain; Region: GAF; cl15785 526222000015 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 526222000016 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 526222000017 anti sigma factor interaction site; other site 526222000018 regulatory phosphorylation site [posttranslational modification]; other site 526222000019 Permease; Region: Permease; cl00510 526222000020 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 526222000021 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 526222000022 Walker A/P-loop; other site 526222000023 ATP binding site [chemical binding]; other site 526222000024 Q-loop/lid; other site 526222000025 ABC transporter signature motif; other site 526222000026 Walker B; other site 526222000027 D-loop; other site 526222000028 H-loop/switch region; other site 526222000029 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 526222000030 mce related protein; Region: MCE; pfam02470 526222000031 Protein of unknown function (DUF330); Region: DUF330; cl01135 526222000032 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 526222000033 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 526222000034 active site 526222000035 ADP/pyrophosphate binding site [chemical binding]; other site 526222000036 dimerization interface [polypeptide binding]; other site 526222000037 allosteric effector site; other site 526222000038 fructose-1,6-bisphosphate binding site; other site 526222000039 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 526222000040 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 526222000041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222000042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222000043 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 526222000044 dihydroorotase; Validated; Region: pyrC; PRK09357 526222000045 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 526222000046 active site 526222000047 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 526222000048 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 526222000049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 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 imidazolonepropionase; Region: hutI; TIGR01224 526222000052 active site 526222000053 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 526222000054 tandem repeat interface [polypeptide binding]; other site 526222000055 oligomer interface [polypeptide binding]; other site 526222000056 active site residues [active] 526222000057 LysE type translocator; Region: LysE; cl00565 526222000058 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 526222000059 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 526222000060 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 526222000061 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_1; cd09156 526222000062 putative active site [active] 526222000063 catalytic site [active] 526222000064 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_2; cd09162 526222000065 putative active site [active] 526222000066 catalytic site [active] 526222000067 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 526222000068 ligand binding site [chemical binding]; other site 526222000069 flexible hinge region; other site 526222000070 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 526222000071 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222000072 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 526222000073 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222000074 ligand binding site [chemical binding]; other site 526222000075 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 526222000076 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 526222000077 Ligand binding site; other site 526222000078 Putative Catalytic site; other site 526222000079 DXD motif; other site 526222000080 YdjC-like protein; Region: YdjC; cl01344 526222000081 LysE type translocator; Region: LysE; cl00565 526222000082 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 526222000083 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 526222000084 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 526222000085 Peptidase M16C associated; Region: M16C_assoc; pfam08367 526222000086 peroxiredoxin; Region: AhpC; TIGR03137 526222000087 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 526222000088 dimer interface [polypeptide binding]; other site 526222000089 decamer (pentamer of dimers) interface [polypeptide binding]; other site 526222000090 catalytic triad [active] 526222000091 peroxidatic and resolving cysteines [active] 526222000092 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 526222000093 S-adenosylmethionine binding site [chemical binding]; other site 526222000094 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 526222000095 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 526222000096 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222000097 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222000098 dimer interface [polypeptide binding]; other site 526222000099 putative CheW interface [polypeptide binding]; other site 526222000100 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 526222000101 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 526222000102 MOFRL family; Region: MOFRL; pfam05161 526222000103 Transcriptional regulators [Transcription]; Region: FadR; COG2186 526222000104 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222000105 DNA-binding site [nucleotide binding]; DNA binding site 526222000106 FCD domain; Region: FCD; cl11656 526222000107 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 526222000108 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 526222000109 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 526222000110 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222000111 dimer interface [polypeptide binding]; other site 526222000112 putative CheW interface [polypeptide binding]; other site 526222000113 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 526222000114 S-adenosylmethionine binding site [chemical binding]; other site 526222000115 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 526222000116 AMP-binding enzyme; Region: AMP-binding; cl15778 526222000117 Protein of unknown function, DUF399; Region: DUF399; cl01139 526222000118 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 526222000119 protein binding site [polypeptide binding]; other site 526222000120 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 526222000121 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 526222000122 DNA binding site [nucleotide binding] 526222000123 catalytic residue [active] 526222000124 H2TH interface [polypeptide binding]; other site 526222000125 putative catalytic residues [active] 526222000126 turnover-facilitating residue; other site 526222000127 intercalation triad [nucleotide binding]; other site 526222000128 8OG recognition residue [nucleotide binding]; other site 526222000129 putative reading head residues; other site 526222000130 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 526222000131 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 526222000132 integral membrane protein MviN; Region: mviN; TIGR01695 526222000133 MatE; Region: MatE; cl10513 526222000134 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 526222000135 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 526222000136 S-adenosylmethionine binding site [chemical binding]; other site 526222000137 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222000138 AAA domain; Region: AAA_23; pfam13476 526222000139 Walker A/P-loop; other site 526222000140 ATP binding site [chemical binding]; other site 526222000141 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 526222000142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222000143 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 526222000144 active site 526222000145 metal binding site [ion binding]; metal-binding site 526222000146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222000147 Q-loop/lid; other site 526222000148 ABC transporter signature motif; other site 526222000149 Walker B; other site 526222000150 D-loop; other site 526222000151 H-loop/switch region; other site 526222000152 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 526222000153 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 526222000154 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222000155 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 526222000156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222000157 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 526222000158 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 526222000159 substrate binding site [chemical binding]; other site 526222000160 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 526222000161 octamerization interface [polypeptide binding]; other site 526222000162 diferric-oxygen binding site [ion binding]; other site 526222000163 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 526222000164 putative dimer interface [polypeptide binding]; other site 526222000165 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 526222000166 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 526222000167 putative dimer interface [polypeptide binding]; other site 526222000168 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 526222000169 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 526222000170 Trm112p-like protein; Region: Trm112p; cl01066 526222000171 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 526222000172 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 526222000173 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 526222000174 Peptidase family U32; Region: Peptidase_U32; cl03113 526222000175 FOG: CBS domain [General function prediction only]; Region: COG0517 526222000176 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 526222000177 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 526222000178 SEC-C motif; Region: SEC-C; pfam02810 526222000179 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 526222000180 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 526222000181 RF-1 domain; Region: RF-1; cl02875 526222000182 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222000183 ligand binding site [chemical binding]; other site 526222000184 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222000185 Helix-turn-helix domains; Region: HTH; cl00088 526222000186 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222000187 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 526222000188 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 526222000189 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222000190 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 526222000191 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 526222000192 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 526222000193 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 526222000194 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 526222000195 Walker A/P-loop; other site 526222000196 ATP binding site [chemical binding]; other site 526222000197 Q-loop/lid; other site 526222000198 ABC transporter signature motif; other site 526222000199 Walker B; other site 526222000200 D-loop; other site 526222000201 H-loop/switch region; other site 526222000202 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 526222000203 ABC-ATPase subunit interface; other site 526222000204 dimer interface [polypeptide binding]; other site 526222000205 putative PBP binding regions; other site 526222000206 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 526222000207 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 526222000208 putative metal binding site [ion binding]; other site 526222000209 Ribbon-helix-helix domain; Region: RHH_4; cl01775 526222000210 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 526222000211 intracellular protease, PfpI family; Region: PfpI; TIGR01382 526222000212 conserved cys residue [active] 526222000213 FG-GAP repeat; Region: FG-GAP; cl15299 526222000214 FG-GAP repeat; Region: FG-GAP; cl15299 526222000215 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 526222000216 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 526222000217 PAS fold; Region: PAS; pfam00989 526222000218 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 526222000219 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 526222000220 Ferritin-like domain; Region: Ferritin; pfam00210 526222000221 ferroxidase diiron center [ion binding]; other site 526222000222 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 526222000223 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 526222000224 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 526222000225 HEAT repeats; Region: HEAT_2; pfam13646 526222000226 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 526222000227 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222000228 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222000229 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 526222000230 Rubredoxin; Region: Rubredoxin; pfam00301 526222000231 iron binding site [ion binding]; other site 526222000232 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 526222000233 Rubredoxin; Region: Rubredoxin; pfam00301 526222000234 iron binding site [ion binding]; other site 526222000235 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 526222000236 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 526222000237 non-heme iron binding site [ion binding]; other site 526222000238 dimer interface [polypeptide binding]; other site 526222000239 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 526222000240 non-heme iron binding site [ion binding]; other site 526222000241 dimer interface [polypeptide binding]; other site 526222000242 Rubrerythrin [Energy production and conversion]; Region: COG1592 526222000243 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 526222000244 binuclear metal center [ion binding]; other site 526222000245 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 526222000246 iron binding site [ion binding]; other site 526222000247 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 526222000248 metal binding site 2 [ion binding]; metal-binding site 526222000249 putative DNA binding helix; other site 526222000250 metal binding site 1 [ion binding]; metal-binding site 526222000251 dimer interface [polypeptide binding]; other site 526222000252 structural Zn2+ binding site [ion binding]; other site 526222000253 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 526222000254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222000255 active site 526222000256 phosphorylation site [posttranslational modification] 526222000257 intermolecular recognition site; other site 526222000258 dimerization interface [polypeptide binding]; other site 526222000259 LytTr DNA-binding domain; Region: LytTR; cl04498 526222000260 acetyl-CoA synthetase; Provisional; Region: PRK00174 526222000261 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 526222000262 AMP-binding enzyme; Region: AMP-binding; cl15778 526222000263 AMP-binding enzyme; Region: AMP-binding; cl15778 526222000264 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 526222000265 Phosphate transporter family; Region: PHO4; cl00396 526222000266 Phosphate transporter family; Region: PHO4; cl00396 526222000267 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 526222000268 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 526222000269 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 526222000270 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 526222000271 dimer interface [polypeptide binding]; other site 526222000272 phosphorylation site [posttranslational modification] 526222000273 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 526222000274 ATP binding site [chemical binding]; other site 526222000275 Mg2+ binding site [ion binding]; other site 526222000276 G-X-G motif; other site 526222000277 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 526222000278 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 526222000279 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 526222000280 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 526222000281 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 526222000282 FeS/SAM binding site; other site 526222000283 FeoA domain; Region: FeoA; cl00838 526222000284 FeoA domain; Region: FeoA; cl00838 526222000285 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 526222000286 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 526222000287 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 526222000288 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 526222000289 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 526222000290 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 526222000291 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 526222000292 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 526222000293 metal binding site 2 [ion binding]; metal-binding site 526222000294 putative DNA binding helix; other site 526222000295 metal binding site 1 [ion binding]; metal-binding site 526222000296 dimer interface [polypeptide binding]; other site 526222000297 structural Zn2+ binding site [ion binding]; other site 526222000298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222000299 metal binding site [ion binding]; metal-binding site 526222000300 active site 526222000301 I-site; other site 526222000302 FeoA domain; Region: FeoA; cl00838 526222000303 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 526222000304 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 526222000305 G1 box; other site 526222000306 GTP/Mg2+ binding site [chemical binding]; other site 526222000307 Switch I region; other site 526222000308 G2 box; other site 526222000309 G3 box; other site 526222000310 Switch II region; other site 526222000311 G4 box; other site 526222000312 G5 box; other site 526222000313 Nucleoside recognition; Region: Gate; cl00486 526222000314 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 526222000315 Nucleoside recognition; Region: Gate; cl00486 526222000316 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222000317 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 526222000318 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 526222000319 phosphoserine phosphatase SerB; Region: serB; TIGR00338 526222000320 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 526222000321 motif II; other site 526222000322 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 526222000323 ATP binding site [chemical binding]; other site 526222000324 Mg2+ binding site [ion binding]; other site 526222000325 G-X-G motif; other site 526222000326 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 526222000327 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 526222000328 Catalytic site [active] 526222000329 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 526222000330 oligomerization interface [polypeptide binding]; other site 526222000331 active site 526222000332 metal binding site [ion binding]; metal-binding site 526222000333 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 526222000334 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 526222000335 putative active site [active] 526222000336 catalytic site [active] 526222000337 putative substrate binding site [chemical binding]; other site 526222000338 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 526222000339 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 526222000340 G1 box; other site 526222000341 putative GEF interaction site [polypeptide binding]; other site 526222000342 GTP/Mg2+ binding site [chemical binding]; other site 526222000343 Switch I region; other site 526222000344 G2 box; other site 526222000345 G3 box; other site 526222000346 Switch II region; other site 526222000347 G4 box; other site 526222000348 G5 box; other site 526222000349 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 526222000350 Protein kinase domain; Region: Pkinase; pfam00069 526222000351 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222000352 active site 526222000353 ATP binding site [chemical binding]; other site 526222000354 substrate binding site [chemical binding]; other site 526222000355 activation loop (A-loop); other site 526222000356 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222000357 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222000358 Predicted ATPase [General function prediction only]; Region: COG3899 526222000359 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222000360 GAF domain; Region: GAF; cl15785 526222000361 PAS domain S-box; Region: sensory_box; TIGR00229 526222000362 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 526222000363 putative active site [active] 526222000364 heme pocket [chemical binding]; other site 526222000365 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 526222000366 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 526222000367 dimer interface [polypeptide binding]; other site 526222000368 phosphorylation site [posttranslational modification] 526222000369 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 526222000370 ATP binding site [chemical binding]; other site 526222000371 Mg2+ binding site [ion binding]; other site 526222000372 G-X-G motif; other site 526222000373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222000374 active site 526222000375 phosphorylation site [posttranslational modification] 526222000376 intermolecular recognition site; other site 526222000377 dimerization interface [polypeptide binding]; other site 526222000378 High-affinity nickel-transport protein; Region: NicO; cl00964 526222000379 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 526222000380 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222000381 Helix-turn-helix domains; Region: HTH; cl00088 526222000382 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 526222000383 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 526222000384 adenylate kinase; Provisional; Region: PRK13808 526222000385 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222000386 Helix-turn-helix domains; Region: HTH; cl00088 526222000387 Acetokinase family; Region: Acetate_kinase; cl01029 526222000388 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 526222000389 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 526222000390 trimerization site [polypeptide binding]; other site 526222000391 active site 526222000392 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 526222000393 NifU-like domain; Region: NifU; cl00484 526222000394 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 526222000395 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 526222000396 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222000397 catalytic residue [active] 526222000398 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 526222000399 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 526222000400 dimer interface [polypeptide binding]; other site 526222000401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222000402 catalytic residue [active] 526222000403 serine O-acetyltransferase; Region: cysE; TIGR01172 526222000404 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 526222000405 trimer interface [polypeptide binding]; other site 526222000406 active site 526222000407 substrate binding site [chemical binding]; other site 526222000408 CoA binding site [chemical binding]; other site 526222000409 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 526222000410 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 526222000411 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 526222000412 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 526222000413 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 526222000414 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 ATP-dependent...; Region: HisRS-like_core; cd00773 526222000415 dimer interface [polypeptide binding]; other site 526222000416 motif 1; other site 526222000417 active site 526222000418 motif 2; other site 526222000419 motif 3; other site 526222000420 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 526222000421 anticodon binding site; other site 526222000422 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 526222000423 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 526222000424 dimer interface [polypeptide binding]; other site 526222000425 anticodon binding site; other site 526222000426 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 the...; Region: AspRS_core; cd00777 526222000427 homodimer interface [polypeptide binding]; other site 526222000428 motif 1; other site 526222000429 active site 526222000430 motif 2; other site 526222000431 GAD domain; Region: GAD; pfam02938 526222000432 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 the...; Region: AspRS_core; cd00777 526222000433 motif 3; other site 526222000434 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 526222000435 active site 526222000436 catalytic residues [active] 526222000437 metal binding site [ion binding]; metal-binding site 526222000438 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 526222000439 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 526222000440 putative active site [active] 526222000441 substrate binding site [chemical binding]; other site 526222000442 putative cosubstrate binding site; other site 526222000443 catalytic site [active] 526222000444 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 526222000445 substrate binding site [chemical binding]; other site 526222000446 Protein of unknown function DUF116; Region: DUF116; cl00800 526222000447 16S rRNA methyltransferase B; Provisional; Region: PRK14902 526222000448 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 526222000449 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; cl15754 526222000450 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222000451 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 526222000452 binding surface 526222000453 TPR motif; other site 526222000454 TPR repeat; Region: TPR_11; pfam13414 526222000455 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 526222000456 non-specific DNA binding site [nucleotide binding]; other site 526222000457 salt bridge; other site 526222000458 sequence-specific DNA binding site [nucleotide binding]; other site 526222000459 Cupin domain; Region: Cupin_2; cl09118 526222000460 AMP-binding domain protein; Validated; Region: PRK08315 526222000461 AMP-binding enzyme; Region: AMP-binding; cl15778 526222000462 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222000463 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 526222000464 non-specific DNA binding site [nucleotide binding]; other site 526222000465 salt bridge; other site 526222000466 sequence-specific DNA binding site [nucleotide binding]; other site 526222000467 Cupin domain; Region: Cupin_2; cl09118 526222000468 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 526222000469 AMP-binding enzyme; Region: AMP-binding; cl15778 526222000470 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222000471 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 526222000472 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222000473 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 526222000474 DNA binding residues [nucleotide binding] 526222000475 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 526222000476 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 526222000477 S-adenosylmethionine binding site [chemical binding]; other site 526222000478 Predicted membrane protein [Function unknown]; Region: COG3304 526222000479 Domain of unknown function (DUF307); Region: DUF307; pfam03733 526222000480 Fic family protein [Function unknown]; Region: COG3177 526222000481 Fic/DOC family; Region: Fic; cl00960 526222000482 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 526222000483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222000484 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 526222000485 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222000486 FeS/SAM binding site; other site 526222000487 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 526222000488 putative DNA binding site [nucleotide binding]; other site 526222000489 putative Zn2+ binding site [ion binding]; other site 526222000490 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 526222000491 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 526222000492 homodimer interface [polypeptide binding]; other site 526222000493 oligonucleotide binding site [chemical binding]; other site 526222000494 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 526222000495 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 526222000496 Ligand Binding Site [chemical binding]; other site 526222000497 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 526222000498 Ligand Binding Site [chemical binding]; other site 526222000499 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 526222000500 HemN C-terminal domain; Region: HemN_C; pfam06969 526222000501 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 526222000502 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 526222000503 TPR motif; other site 526222000504 binding surface 526222000505 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 526222000506 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 526222000507 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 526222000508 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 526222000509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222000510 UDP-galactopyranose mutase; Region: GLF; pfam03275 526222000511 HflC protein; Region: hflC; TIGR01932 526222000512 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 526222000513 HflK protein; Region: hflK; TIGR01933 526222000514 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 526222000515 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 526222000516 FeS/SAM binding site; other site 526222000517 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 526222000518 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 526222000519 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 526222000520 active site 526222000521 substrate binding site [chemical binding]; other site 526222000522 metal binding site [ion binding]; metal-binding site 526222000523 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 526222000524 RNA/DNA hybrid binding site [nucleotide binding]; other site 526222000525 active site 526222000526 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222000527 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 526222000528 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 526222000529 cytidylate kinase; Provisional; Region: cmk; PRK00023 526222000530 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 526222000531 CMP-binding site; other site 526222000532 The sites determining sugar specificity; other site 526222000533 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 526222000534 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 526222000535 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222000536 homodimer interface [polypeptide binding]; other site 526222000537 catalytic residue [active] 526222000538 GTPase RsgA; Reviewed; Region: PRK01889 526222000539 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 526222000540 RNA binding site [nucleotide binding]; other site 526222000541 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 526222000542 GTPase/Zn-binding domain interface [polypeptide binding]; other site 526222000543 GTP/Mg2+ binding site [chemical binding]; other site 526222000544 G4 box; other site 526222000545 G5 box; other site 526222000546 G1 box; other site 526222000547 Switch I region; other site 526222000548 G2 box; other site 526222000549 G3 box; other site 526222000550 Switch II region; other site 526222000551 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 526222000552 Ligand Binding Site [chemical binding]; other site 526222000553 Polysulphide reductase, NrfD; Region: NrfD; cl01295 526222000554 tetrathionate reductase subunit B; Provisional; Region: PRK14993 526222000555 4Fe-4S binding domain; Region: Fer4; cl02805 526222000556 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222000557 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 526222000558 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 526222000559 Sugar fermentation stimulation protein; Region: SfsA; cl00647 526222000560 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 526222000561 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222000562 Cysteine-rich domain; Region: CCG; pfam02754 526222000563 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 526222000564 signal recognition particle protein; Provisional; Region: PRK10867 526222000565 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 526222000566 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 526222000567 P loop; other site 526222000568 GTP binding site [chemical binding]; other site 526222000569 Signal peptide binding domain; Region: SRP_SPB; pfam02978 526222000570 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 526222000571 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 526222000572 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 526222000573 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 526222000574 RimM N-terminal domain; Region: RimM; pfam01782 526222000575 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 526222000576 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 526222000577 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 526222000578 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 526222000579 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 526222000580 RNA/DNA hybrid binding site [nucleotide binding]; other site 526222000581 active site 526222000582 Restriction endonuclease; Region: Mrr_cat; cl00516 526222000583 Predicted methyltransferases [General function prediction only]; Region: COG0313 526222000584 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 526222000585 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 526222000586 dimerization domain swap beta strand [polypeptide binding]; other site 526222000587 regulatory protein interface [polypeptide binding]; other site 526222000588 active site 526222000589 regulatory phosphorylation site [posttranslational modification]; other site 526222000590 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 526222000591 SmpB-tmRNA interface; other site 526222000592 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222000593 Helix-turn-helix domains; Region: HTH; cl00088 526222000594 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 526222000595 dimerization interface [polypeptide binding]; other site 526222000596 FAD binding domain; Region: FAD_binding_4; pfam01565 526222000597 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 526222000598 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 526222000599 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222000600 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 526222000601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222000602 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 526222000603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222000604 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 526222000605 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 526222000606 dimerization interface [polypeptide binding]; other site 526222000607 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222000608 dimer interface [polypeptide binding]; other site 526222000609 putative CheW interface [polypeptide binding]; other site 526222000610 MarC family integral membrane protein; Region: MarC; cl00919 526222000611 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 526222000612 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 526222000613 active site 526222000614 metal binding site [ion binding]; metal-binding site 526222000615 homotetramer interface [polypeptide binding]; other site 526222000616 VacJ like lipoprotein; Region: VacJ; cl01073 526222000617 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 526222000618 mce related protein; Region: MCE; pfam02470 526222000619 Permease; Region: Permease; cl00510 526222000620 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222000621 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 526222000622 heterotetramer interface [polypeptide binding]; other site 526222000623 active site pocket [active] 526222000624 cleavage site 526222000625 SurA N-terminal domain; Region: SurA_N_3; cl07813 526222000626 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 526222000627 PPIC-type PPIASE domain; Region: Rotamase; cl08278 526222000628 aconitate hydratase; Validated; Region: PRK07229 526222000629 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 526222000630 substrate binding site [chemical binding]; other site 526222000631 ligand binding site [chemical binding]; other site 526222000632 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 526222000633 substrate binding site [chemical binding]; other site 526222000634 Chorismate mutase type II; Region: CM_2; cl00693 526222000635 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 526222000636 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 with a...; Region: EPT_RTPC-like; cl00288 526222000637 putative active site [active] 526222000638 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 526222000639 ATP-sulfurylase; Region: ATPS; cd00517 526222000640 active site 526222000641 HXXH motif; other site 526222000642 flexible loop; other site 526222000643 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 526222000644 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222000645 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 526222000646 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 526222000647 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 526222000648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222000649 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 526222000650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222000651 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 526222000652 4Fe-4S binding domain; Region: Fer4; cl02805 526222000653 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 526222000654 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 526222000655 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 526222000656 tricarballylate utilization protein B; Provisional; Region: PRK15033 526222000657 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 526222000658 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 526222000659 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 526222000660 Walker A/P-loop; other site 526222000661 ATP binding site [chemical binding]; other site 526222000662 Q-loop/lid; other site 526222000663 ABC transporter signature motif; other site 526222000664 Walker B; other site 526222000665 D-loop; other site 526222000666 H-loop/switch region; other site 526222000667 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 526222000668 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 526222000669 dimerization interface [polypeptide binding]; other site 526222000670 ligand binding site [chemical binding]; other site 526222000671 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 526222000672 TM-ABC transporter signature motif; other site 526222000673 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 526222000674 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 526222000675 TM-ABC transporter signature motif; other site 526222000676 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 526222000677 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 526222000678 Walker A/P-loop; other site 526222000679 ATP binding site [chemical binding]; other site 526222000680 Q-loop/lid; other site 526222000681 ABC transporter signature motif; other site 526222000682 Walker B; other site 526222000683 D-loop; other site 526222000684 H-loop/switch region; other site 526222000685 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222000686 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 526222000687 substrate binding pocket [chemical binding]; other site 526222000688 membrane-bound complex binding site; other site 526222000689 hinge residues; other site 526222000690 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 526222000691 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 526222000692 MgtE intracellular N domain; Region: MgtE_N; cl15244 526222000693 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 526222000694 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 526222000695 dimerization interface 3.5A [polypeptide binding]; other site 526222000696 active site 526222000697 Protein of unknown function (DUF342); Region: DUF342; pfam03961 526222000698 Protein of unknown function (DUF342); Region: DUF342; pfam03961 526222000699 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 526222000700 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 526222000701 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 526222000702 HIGH motif; other site 526222000703 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 526222000704 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 526222000705 active site 526222000706 KMSKS motif; other site 526222000707 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 526222000708 tRNA binding surface [nucleotide binding]; other site 526222000709 anticodon binding site; other site 526222000710 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 526222000711 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 526222000712 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 526222000713 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 526222000714 active site 526222000715 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 526222000716 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 526222000717 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 526222000718 active site 526222000719 substrate binding site [chemical binding]; other site 526222000720 cosubstrate binding site; other site 526222000721 catalytic site [active] 526222000722 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222000723 active site 526222000724 ATP binding site [chemical binding]; other site 526222000725 substrate binding site [chemical binding]; other site 526222000726 AMMECR1; Region: AMMECR1; cl00911 526222000727 Cysteine-rich small domain; Region: zf-like; cl00946 526222000728 Cache domain; Region: Cache_1; pfam02743 526222000729 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 526222000730 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 526222000731 dimerization interface [polypeptide binding]; other site 526222000732 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 526222000733 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 526222000734 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 526222000735 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222000736 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222000737 metal binding site [ion binding]; metal-binding site 526222000738 active site 526222000739 I-site; other site 526222000740 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 526222000741 Cache domain; Region: Cache_1; pfam02743 526222000742 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 526222000743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222000744 metal binding site [ion binding]; metal-binding site 526222000745 active site 526222000746 I-site; other site 526222000747 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 526222000748 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 526222000749 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 526222000750 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 526222000751 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 526222000752 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 526222000753 S-adenosylmethionine binding site [chemical binding]; other site 526222000754 CbiD; Region: CbiD; cl00828 526222000755 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 526222000756 active site 526222000757 DNA polymerase IV; Validated; Region: PRK02406 526222000758 DNA binding site [nucleotide binding] 526222000759 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 526222000760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222000761 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 526222000762 catalytic triad [active] 526222000763 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222000764 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 526222000765 binding surface 526222000766 TPR motif; other site 526222000767 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222000768 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 526222000769 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 526222000770 Cache domain; Region: Cache_1; pfam02743 526222000771 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 526222000772 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222000773 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222000774 dimer interface [polypeptide binding]; other site 526222000775 putative CheW interface [polypeptide binding]; other site 526222000776 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 526222000777 putative catalytic site [active] 526222000778 putative metal binding site [ion binding]; other site 526222000779 putative phosphate binding site [ion binding]; other site 526222000780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222000781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222000782 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222000783 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 526222000784 putative alcohol dehydrogenase; Provisional; Region: PRK09860 526222000785 dimer interface [polypeptide binding]; other site 526222000786 active site 526222000787 metal binding site [ion binding]; metal-binding site 526222000788 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 526222000789 dimer interface [polypeptide binding]; other site 526222000790 catalytic triad [active] 526222000791 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 526222000792 catalytic residues [active] 526222000793 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222000794 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222000795 active site 526222000796 phosphorylation site [posttranslational modification] 526222000797 intermolecular recognition site; other site 526222000798 dimerization interface [polypeptide binding]; other site 526222000799 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 526222000800 Walker A motif; other site 526222000801 ATP binding site [chemical binding]; other site 526222000802 Walker B motif; other site 526222000803 arginine finger; other site 526222000804 Helix-turn-helix domains; Region: HTH; cl00088 526222000805 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 526222000806 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222000807 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 526222000808 dimer interface [polypeptide binding]; other site 526222000809 phosphorylation site [posttranslational modification] 526222000810 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 526222000811 ATP binding site [chemical binding]; other site 526222000812 Mg2+ binding site [ion binding]; other site 526222000813 G-X-G motif; other site 526222000814 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 526222000815 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222000816 active site 526222000817 NAD binding site [chemical binding]; other site 526222000818 metal binding site [ion binding]; metal-binding site 526222000819 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 526222000820 catalytic core [active] 526222000821 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 526222000822 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 526222000823 Ligand binding site; other site 526222000824 metal-binding site 526222000825 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222000826 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 526222000827 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 526222000828 XdhC Rossmann domain; Region: XdhC_C; pfam13478 526222000829 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 526222000830 AMP-binding enzyme; Region: AMP-binding; cl15778 526222000831 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 526222000832 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 526222000833 FeS/SAM binding site; other site 526222000834 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 526222000835 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222000836 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 526222000837 S-adenosylmethionine binding site [chemical binding]; other site 526222000838 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 526222000839 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222000840 Cysteine-rich domain; Region: CCG; pfam02754 526222000841 Cysteine-rich domain; Region: CCG; pfam02754 526222000842 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 526222000843 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 526222000844 catalytic loop [active] 526222000845 iron binding site [ion binding]; other site 526222000846 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 526222000847 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 526222000848 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 526222000849 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 526222000850 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 526222000851 putative MPT binding site; other site 526222000852 Domain of unknown function (DUF364); Region: DUF364; pfam04016 526222000853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222000854 dimer interface [polypeptide binding]; other site 526222000855 conserved gate region; other site 526222000856 putative PBP binding loops; other site 526222000857 ABC-ATPase subunit interface; other site 526222000858 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 526222000859 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 526222000860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222000861 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 526222000862 Walker A/P-loop; other site 526222000863 ATP binding site [chemical binding]; other site 526222000864 Q-loop/lid; other site 526222000865 ABC transporter signature motif; other site 526222000866 Walker B; other site 526222000867 D-loop; other site 526222000868 H-loop/switch region; other site 526222000869 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222000870 dimer interface [polypeptide binding]; other site 526222000871 conserved gate region; other site 526222000872 putative PBP binding loops; other site 526222000873 ABC-ATPase subunit interface; other site 526222000874 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 526222000875 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 526222000876 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 526222000877 DNA binding site [nucleotide binding] 526222000878 Int/Topo IB signature motif; other site 526222000879 active site 526222000880 catalytic residues [active] 526222000881 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 526222000882 TOBE domain; Region: TOBE_2; cl01440 526222000883 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222000884 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 526222000885 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 526222000886 dimer interface [polypeptide binding]; other site 526222000887 catalytic triad [active] 526222000888 peroxidatic and resolving cysteines [active] 526222000889 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222000890 Type IV secretion system proteins; Region: T4SS; pfam07996 526222000891 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 526222000892 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 526222000893 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 526222000894 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 526222000895 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 526222000896 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 526222000897 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222000898 Walker A/P-loop; other site 526222000899 ATP binding site [chemical binding]; other site 526222000900 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 526222000901 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 526222000902 DNA binding site [nucleotide binding] 526222000903 Int/Topo IB signature motif; other site 526222000904 active site 526222000905 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222000906 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222000907 putative substrate translocation pore; other site 526222000908 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 526222000909 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 526222000910 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 526222000911 FMN-binding domain; Region: FMN_bind; cl01081 526222000912 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 526222000913 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 526222000914 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 526222000915 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 526222000916 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 526222000917 catalytic loop [active] 526222000918 iron binding site [ion binding]; other site 526222000919 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 526222000920 FAD binding pocket [chemical binding]; other site 526222000921 FAD binding motif [chemical binding]; other site 526222000922 phosphate binding motif [ion binding]; other site 526222000923 beta-alpha-beta structure motif; other site 526222000924 NAD binding pocket [chemical binding]; other site 526222000925 ApbE family; Region: ApbE; cl00643 526222000926 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 526222000927 dinuclear metal binding motif [ion binding]; other site 526222000928 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 526222000929 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 526222000930 active site 526222000931 catalytic site [active] 526222000932 DctM-like transporters; Region: DctM; pfam06808 526222000933 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 526222000934 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 526222000935 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 526222000936 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222000937 Transcriptional regulators [Transcription]; Region: PurR; COG1609 526222000938 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 526222000939 DNA binding site [nucleotide binding] 526222000940 domain linker motif; other site 526222000941 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 526222000942 dimerization interface [polypeptide binding]; other site 526222000943 ligand binding site [chemical binding]; other site 526222000944 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222000945 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 526222000946 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 526222000947 dimerization interface [polypeptide binding]; other site 526222000948 PAS fold; Region: PAS_4; pfam08448 526222000949 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222000950 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 526222000951 putative active site [active] 526222000952 heme pocket [chemical binding]; other site 526222000953 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 526222000954 dimer interface [polypeptide binding]; other site 526222000955 phosphorylation site [posttranslational modification] 526222000956 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 526222000957 ATP binding site [chemical binding]; other site 526222000958 Mg2+ binding site [ion binding]; other site 526222000959 G-X-G motif; other site 526222000960 Response regulator receiver domain; Region: Response_reg; pfam00072 526222000961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222000962 active site 526222000963 phosphorylation site [posttranslational modification] 526222000964 intermolecular recognition site; other site 526222000965 dimerization interface [polypeptide binding]; other site 526222000966 sensory histidine kinase AtoS; Provisional; Region: PRK11360 526222000967 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 526222000968 ATP binding site [chemical binding]; other site 526222000969 Mg2+ binding site [ion binding]; other site 526222000970 G-X-G motif; other site 526222000971 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222000972 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222000973 active site 526222000974 phosphorylation site [posttranslational modification] 526222000975 intermolecular recognition site; other site 526222000976 dimerization interface [polypeptide binding]; other site 526222000977 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 526222000978 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 526222000979 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222000980 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 526222000981 active site residue [active] 526222000982 Helix-turn-helix domains; Region: HTH; cl00088 526222000983 Rrf2 family protein; Region: rrf2_super; TIGR00738 526222000984 Gram-negative bacterial tonB protein; Region: TonB; cl10048 526222000985 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 526222000986 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222000987 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 526222000988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222000989 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 526222000990 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222000991 transcriptional regulator NanR; Provisional; Region: PRK03837 526222000992 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222000993 DNA-binding site [nucleotide binding]; DNA binding site 526222000994 FCD domain; Region: FCD; cl11656 526222000995 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 526222000996 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 526222000997 [4Fe-4S] binding site [ion binding]; other site 526222000998 molybdopterin cofactor binding site; other site 526222000999 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 526222001000 molybdopterin cofactor binding site; other site 526222001001 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 526222001002 4Fe-4S binding domain; Region: Fer4; cl02805 526222001003 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 526222001004 4Fe-4S binding domain; Region: Fer4; cl02805 526222001005 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 526222001006 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 526222001007 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 526222001008 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222001009 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222001010 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 526222001011 putative active site [active] 526222001012 heme pocket [chemical binding]; other site 526222001013 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 526222001014 dimer interface [polypeptide binding]; other site 526222001015 phosphorylation site [posttranslational modification] 526222001016 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 526222001017 ATP binding site [chemical binding]; other site 526222001018 Mg2+ binding site [ion binding]; other site 526222001019 G-X-G motif; other site 526222001020 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222001021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222001022 active site 526222001023 phosphorylation site [posttranslational modification] 526222001024 intermolecular recognition site; other site 526222001025 dimerization interface [polypeptide binding]; other site 526222001026 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 526222001027 Walker A motif; other site 526222001028 ATP binding site [chemical binding]; other site 526222001029 Walker B motif; other site 526222001030 arginine finger; other site 526222001031 Helix-turn-helix domains; Region: HTH; cl00088 526222001032 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 526222001033 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 526222001034 FeS/SAM binding site; other site 526222001035 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 526222001036 biotin synthase; Provisional; Region: PRK07094 526222001037 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 526222001038 FeS/SAM binding site; other site 526222001039 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 526222001040 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 526222001041 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 526222001042 FMN binding site [chemical binding]; other site 526222001043 active site 526222001044 catalytic residues [active] 526222001045 substrate binding site [chemical binding]; other site 526222001046 Cytochrome c; Region: Cytochrom_C; cl11414 526222001047 thiosulfate reductase PhsA; Provisional; Region: PRK15488 526222001048 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 526222001049 putative [Fe4-S4] binding site [ion binding]; other site 526222001050 putative molybdopterin cofactor binding site [chemical binding]; other site 526222001051 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 526222001052 putative molybdopterin cofactor binding site; other site 526222001053 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 526222001054 4Fe-4S binding domain; Region: Fer4; cl02805 526222001055 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 526222001056 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 526222001057 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 526222001058 active site residue [active] 526222001059 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 526222001060 active site residue [active] 526222001061 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 526222001062 active site residue [active] 526222001063 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 526222001064 active site residue [active] 526222001065 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 526222001066 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 526222001067 putative homotetramer interface [polypeptide binding]; other site 526222001068 putative homodimer interface [polypeptide binding]; other site 526222001069 putative allosteric switch controlling residues; other site 526222001070 putative metal binding site [ion binding]; other site 526222001071 putative homodimer-homodimer interface [polypeptide binding]; other site 526222001072 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; cl08302 526222001073 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 526222001074 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 526222001075 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 526222001076 putative MPT binding site; other site 526222001077 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; cl15357 526222001078 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; cl15357 526222001079 transmembrane helices; other site 526222001080 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222001081 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; cl15357 526222001082 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; cl15357 526222001083 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 526222001084 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 526222001085 Response regulator receiver domain; Region: Response_reg; pfam00072 526222001086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222001087 active site 526222001088 phosphorylation site [posttranslational modification] 526222001089 intermolecular recognition site; other site 526222001090 dimerization interface [polypeptide binding]; other site 526222001091 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 526222001092 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 526222001093 Walker A motif; other site 526222001094 ATP binding site [chemical binding]; other site 526222001095 Walker B motif; other site 526222001096 arginine finger; other site 526222001097 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 526222001098 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222001099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222001100 active site 526222001101 phosphorylation site [posttranslational modification] 526222001102 intermolecular recognition site; other site 526222001103 dimerization interface [polypeptide binding]; other site 526222001104 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 526222001105 Walker A motif; other site 526222001106 ATP binding site [chemical binding]; other site 526222001107 Walker B motif; other site 526222001108 arginine finger; other site 526222001109 Helix-turn-helix domains; Region: HTH; cl00088 526222001110 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 526222001111 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 526222001112 dimerization interface [polypeptide binding]; other site 526222001113 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 526222001114 dimer interface [polypeptide binding]; other site 526222001115 phosphorylation site [posttranslational modification] 526222001116 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 526222001117 ATP binding site [chemical binding]; other site 526222001118 Mg2+ binding site [ion binding]; other site 526222001119 G-X-G motif; other site 526222001120 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 526222001121 CoenzymeA binding site [chemical binding]; other site 526222001122 subunit interaction site [polypeptide binding]; other site 526222001123 PHB binding site; other site 526222001124 glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins; Region: GH64-TLP-SF; cl02511 526222001125 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 526222001126 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 526222001127 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 526222001128 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 526222001129 protein binding site [polypeptide binding]; other site 526222001130 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 526222001131 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 526222001132 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 526222001133 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 526222001134 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 526222001135 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 526222001136 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 526222001137 Pilus assembly protein, PilO; Region: PilO; cl01234 526222001138 NMT1-like family; Region: NMT1_2; cl15260 526222001139 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 526222001140 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 526222001141 protein binding site [polypeptide binding]; other site 526222001142 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 526222001143 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 526222001144 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 526222001145 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 526222001146 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 526222001147 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 526222001148 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 526222001149 Walker A motif; other site 526222001150 ATP binding site [chemical binding]; other site 526222001151 Walker B motif; other site 526222001152 general secretion pathway protein F; Region: GspF; TIGR02120 526222001153 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 526222001154 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 526222001155 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222001156 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 526222001157 PAS domain S-box; Region: sensory_box; TIGR00229 526222001158 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 526222001159 putative active site [active] 526222001160 heme pocket [chemical binding]; other site 526222001161 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 526222001162 PAS domain; Region: PAS_9; pfam13426 526222001163 putative active site [active] 526222001164 heme pocket [chemical binding]; other site 526222001165 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222001166 metal binding site [ion binding]; metal-binding site 526222001167 active site 526222001168 I-site; other site 526222001169 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 526222001170 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 526222001171 active site 526222001172 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 526222001173 EamA-like transporter family; Region: EamA; cl01037 526222001174 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222001175 EamA-like transporter family; Region: EamA; cl01037 526222001176 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222001177 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; cl15357 526222001178 transmembrane helices; other site 526222001179 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 526222001180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001181 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222001182 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 526222001183 catalytic residues [active] 526222001184 Sulfatase; Region: Sulfatase; cl10460 526222001185 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 526222001186 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 526222001187 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222001188 ligand binding site [chemical binding]; other site 526222001189 flexible hinge region; other site 526222001190 Helix-turn-helix domains; Region: HTH; cl00088 526222001191 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222001192 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222001193 active site 526222001194 phosphorylation site [posttranslational modification] 526222001195 intermolecular recognition site; other site 526222001196 dimerization interface [polypeptide binding]; other site 526222001197 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 526222001198 Walker A motif; other site 526222001199 ATP binding site [chemical binding]; other site 526222001200 Walker B motif; other site 526222001201 arginine finger; other site 526222001202 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 526222001203 sensory histidine kinase AtoS; Provisional; Region: PRK11360 526222001204 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 526222001205 dimer interface [polypeptide binding]; other site 526222001206 phosphorylation site [posttranslational modification] 526222001207 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 526222001208 ATP binding site [chemical binding]; other site 526222001209 Mg2+ binding site [ion binding]; other site 526222001210 G-X-G motif; other site 526222001211 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 526222001212 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 526222001213 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 526222001214 Protein of unknown function (DUF770); Region: DUF770; cl01402 526222001215 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 526222001216 Protein of unknown function (DUF877); Region: DUF877; pfam05943 526222001217 Protein of unknown function (DUF796); Region: DUF796; cl01226 526222001218 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 526222001219 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 526222001220 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 526222001221 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 526222001222 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 526222001223 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 526222001224 Walker A motif; other site 526222001225 ATP binding site [chemical binding]; other site 526222001226 Walker B motif; other site 526222001227 arginine finger; other site 526222001228 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 526222001229 Walker A motif; other site 526222001230 ATP binding site [chemical binding]; other site 526222001231 Walker B motif; other site 526222001232 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 526222001233 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 526222001234 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 526222001235 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 526222001236 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 526222001237 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001238 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 526222001239 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001240 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001241 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001242 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 526222001243 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001244 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001245 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001246 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001247 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001248 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 526222001249 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222001250 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 526222001251 PAAR motif; Region: PAAR_motif; cl15808 526222001252 Protein of unknown function (DUF770); Region: DUF770; cl01402 526222001253 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 526222001254 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 526222001255 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 526222001256 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 526222001257 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 526222001258 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 526222001259 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 526222001260 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 526222001261 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 526222001262 FeS/SAM binding site; other site 526222001263 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 526222001264 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 526222001265 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 526222001266 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 526222001267 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 526222001268 Predicted acetyltransferase [General function prediction only]; Region: COG3153 526222001269 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222001270 Coenzyme A binding pocket [chemical binding]; other site 526222001271 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 526222001272 dimer interface [polypeptide binding]; other site 526222001273 [2Fe-2S] cluster binding site [ion binding]; other site 526222001274 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 526222001275 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 526222001276 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 526222001277 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 526222001278 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 526222001279 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 526222001280 Nitrogen regulatory protein P-II; Region: P-II; cl00412 526222001281 Nitrogen regulatory protein P-II; Region: P-II; smart00938 526222001282 Nitrogen regulatory protein P-II; Region: P-II; cl00412 526222001283 Nitrogen regulatory protein P-II; Region: P-II; smart00938 526222001284 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 526222001285 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 526222001286 Nucleotide-binding sites [chemical binding]; other site 526222001287 Walker A motif; other site 526222001288 Switch I region of nucleotide binding site; other site 526222001289 Fe4S4 binding sites [ion binding]; other site 526222001290 Switch II region of nucleotide binding site; other site 526222001291 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 526222001292 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 526222001293 active site 526222001294 catalytic residues [active] 526222001295 metal binding site [ion binding]; metal-binding site 526222001296 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222001297 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222001298 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 526222001299 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 526222001300 N-terminal plug; other site 526222001301 ligand-binding site [chemical binding]; other site 526222001302 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 526222001303 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 526222001304 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222001305 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 526222001306 Protein export membrane protein; Region: SecD_SecF; cl14618 526222001307 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 526222001308 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 526222001309 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 526222001310 Helix-turn-helix domains; Region: HTH; cl00088 526222001311 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 526222001312 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 526222001313 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 526222001314 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 526222001315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 526222001316 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 526222001317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 526222001318 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 526222001319 S-adenosylmethionine binding site [chemical binding]; other site 526222001320 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222001321 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 526222001322 metal binding site 2 [ion binding]; metal-binding site 526222001323 putative DNA binding helix; other site 526222001324 metal binding site 1 [ion binding]; metal-binding site 526222001325 dimer interface [polypeptide binding]; other site 526222001326 structural Zn2+ binding site [ion binding]; other site 526222001327 Uncharacterized conserved protein [Function unknown]; Region: COG2006 526222001328 Domain of unknown function (DUF362); Region: DUF362; pfam04015 526222001329 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 526222001330 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 526222001331 DNA binding residues [nucleotide binding] 526222001332 drug binding residues [chemical binding]; other site 526222001333 dimer interface [polypeptide binding]; other site 526222001334 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 526222001335 EamA-like transporter family; Region: EamA; cl01037 526222001336 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 526222001337 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 526222001338 Hexamer interface [polypeptide binding]; other site 526222001339 Hexagonal pore residue; other site 526222001340 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 526222001341 Hexamer interface [polypeptide binding]; other site 526222001342 Hexagonal pore residue; other site 526222001343 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 526222001344 putative catalytic cysteine [active] 526222001345 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 526222001346 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 526222001347 dimer interface [polypeptide binding]; other site 526222001348 active site 526222001349 glycine loop; other site 526222001350 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 526222001351 4Fe-4S binding domain; Region: Fer4; cl02805 526222001352 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 526222001353 Hexamer interface [polypeptide binding]; other site 526222001354 Hexagonal pore residue; other site 526222001355 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 526222001356 putative catalytic cysteine [active] 526222001357 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 526222001358 Hexamer interface [polypeptide binding]; other site 526222001359 Putative hexagonal pore residue; other site 526222001360 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 526222001361 Propanediol utilisation protein PduL; Region: PduL; pfam06130 526222001362 Propanediol utilisation protein PduL; Region: PduL; pfam06130 526222001363 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 526222001364 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 526222001365 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 526222001366 Hexamer/Pentamer interface [polypeptide binding]; other site 526222001367 central pore; other site 526222001368 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 526222001369 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 526222001370 putative hexamer interface [polypeptide binding]; other site 526222001371 putative hexagonal pore; other site 526222001372 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 526222001373 putative hexamer interface [polypeptide binding]; other site 526222001374 putative hexagonal pore; other site 526222001375 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 526222001376 Hexamer interface [polypeptide binding]; other site 526222001377 Putative hexagonal pore residue; other site 526222001378 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222001379 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 526222001380 putative active site [active] 526222001381 metal binding site [ion binding]; metal-binding site 526222001382 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 526222001383 SLBB domain; Region: SLBB; pfam10531 526222001384 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 526222001385 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 526222001386 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 526222001387 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 526222001388 putative hexamer interface [polypeptide binding]; other site 526222001389 putative hexagonal pore; other site 526222001390 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 526222001391 putative hexamer interface [polypeptide binding]; other site 526222001392 putative hexagonal pore; other site 526222001393 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 526222001394 putative hexamer interface [polypeptide binding]; other site 526222001395 putative hexagonal pore; other site 526222001396 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 526222001397 G1 box; other site 526222001398 GTP/Mg2+ binding site [chemical binding]; other site 526222001399 G2 box; other site 526222001400 G3 box; other site 526222001401 Switch II region; other site 526222001402 G4 box; other site 526222001403 G5 box; other site 526222001404 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 526222001405 AIR carboxylase; Region: AIRC; cl00310 526222001406 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 526222001407 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 526222001408 Ligand Binding Site [chemical binding]; other site 526222001409 Protein of unknown function DUF111; Region: DUF111; cl03398 526222001410 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 526222001411 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 526222001412 active site 526222001413 catalytic tetrad [active] 526222001414 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 526222001415 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 526222001416 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 526222001417 nucleophile elbow; other site 526222001418 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 526222001419 trimer interface [polypeptide binding]; other site 526222001420 active site 526222001421 substrate binding site [chemical binding]; other site 526222001422 CoA binding site [chemical binding]; other site 526222001423 Protein of unknown function (DUF554); Region: DUF554; cl00784 526222001424 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 526222001425 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222001426 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 526222001427 ligand binding site [chemical binding]; other site 526222001428 flexible hinge region; other site 526222001429 Helix-turn-helix domains; Region: HTH; cl00088 526222001430 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 526222001431 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 526222001432 motif II; other site 526222001433 HDOD domain; Region: HDOD; pfam08668 526222001434 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222001435 GAF domain; Region: GAF; cl15785 526222001436 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 526222001437 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222001438 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 526222001439 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 526222001440 ATP binding site [chemical binding]; other site 526222001441 Mg2+ binding site [ion binding]; other site 526222001442 G-X-G motif; other site 526222001443 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222001444 Response regulator receiver domain; Region: Response_reg; pfam00072 526222001445 active site 526222001446 phosphorylation site [posttranslational modification] 526222001447 intermolecular recognition site; other site 526222001448 dimerization interface [polypeptide binding]; other site 526222001449 Cupin domain; Region: Cupin_2; cl09118 526222001450 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222001451 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 526222001452 putative substrate binding site [chemical binding]; other site 526222001453 putative ATP binding site [chemical binding]; other site 526222001454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222001455 dimer interface [polypeptide binding]; other site 526222001456 conserved gate region; other site 526222001457 putative PBP binding loops; other site 526222001458 ABC-ATPase subunit interface; other site 526222001459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 526222001460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222001461 putative PBP binding loops; other site 526222001462 dimer interface [polypeptide binding]; other site 526222001463 ABC-ATPase subunit interface; other site 526222001464 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 526222001465 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 526222001466 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 526222001467 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 526222001468 Walker A/P-loop; other site 526222001469 ATP binding site [chemical binding]; other site 526222001470 Q-loop/lid; other site 526222001471 ABC transporter signature motif; other site 526222001472 Walker B; other site 526222001473 D-loop; other site 526222001474 H-loop/switch region; other site 526222001475 TOBE domain; Region: TOBE_2; cl01440 526222001476 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 526222001477 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 526222001478 active site 526222001479 catalytic residues [active] 526222001480 Transcriptional regulators [Transcription]; Region: PurR; COG1609 526222001481 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 526222001482 DNA binding site [nucleotide binding] 526222001483 domain linker motif; other site 526222001484 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 526222001485 dimerization interface [polypeptide binding]; other site 526222001486 ligand binding site [chemical binding]; other site 526222001487 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 526222001488 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 526222001489 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 526222001490 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 526222001491 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 526222001492 dimer interface [polypeptide binding]; other site 526222001493 active site 526222001494 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 526222001495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222001496 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 526222001497 DNA binding residues [nucleotide binding] 526222001498 Putative zinc-finger; Region: zf-HC2; cl15806 526222001499 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 526222001500 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 526222001501 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 526222001502 FlgD Ig-like domain; Region: FlgD_ig; cl15790 526222001503 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 526222001504 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 526222001505 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 526222001506 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222001507 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 526222001508 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 526222001509 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 526222001510 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 526222001511 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222001512 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 526222001513 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222001514 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 526222001515 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222001516 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 526222001517 flagellar capping protein; Provisional; Region: PRK12765 526222001518 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 526222001519 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 526222001520 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 526222001521 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 526222001522 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 526222001523 active site 526222001524 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 526222001525 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 526222001526 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 526222001527 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 526222001528 Nif-specific regulatory protein; Region: nifA; TIGR01817 526222001529 GAF domain; Region: GAF; cl15785 526222001530 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 526222001531 Walker A motif; other site 526222001532 ATP binding site [chemical binding]; other site 526222001533 Walker B motif; other site 526222001534 arginine finger; other site 526222001535 Helix-turn-helix domains; Region: HTH; cl00088 526222001536 AMP-binding enzyme; Region: AMP-binding; cl15778 526222001537 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 526222001538 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 526222001539 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 526222001540 dimer interface [polypeptide binding]; other site 526222001541 active site 526222001542 Phosphopantetheine attachment site; Region: PP-binding; cl09936 526222001543 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 526222001544 putative acyl-acceptor binding pocket; other site 526222001545 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 526222001546 Ligand binding site; other site 526222001547 Putative Catalytic site; other site 526222001548 DXD motif; other site 526222001549 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 526222001550 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 526222001551 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 526222001552 B12 binding site [chemical binding]; other site 526222001553 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 526222001554 FeS/SAM binding site; other site 526222001555 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 526222001556 active site 526222001557 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 526222001558 active site 2 [active] 526222001559 active site 1 [active] 526222001560 Predicted exporter [General function prediction only]; Region: COG4258 526222001561 Protein export membrane protein; Region: SecD_SecF; cl14618 526222001562 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 526222001563 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 526222001564 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 526222001565 active site 2 [active] 526222001566 active site 1 [active] 526222001567 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 526222001568 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 526222001569 FeS/SAM binding site; other site 526222001570 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222001571 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 526222001572 putative acyl-acceptor binding pocket; other site 526222001573 Phosphopantetheine attachment site; Region: PP-binding; cl09936 526222001574 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 526222001575 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 526222001576 dimer interface [polypeptide binding]; other site 526222001577 active site 526222001578 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 526222001579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001580 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 526222001581 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 526222001582 dimer interface [polypeptide binding]; other site 526222001583 active site 526222001584 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 526222001585 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 526222001586 NAD(P) binding site [chemical binding]; other site 526222001587 homotetramer interface [polypeptide binding]; other site 526222001588 homodimer interface [polypeptide binding]; other site 526222001589 active site 526222001590 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222001591 GAF domain; Region: GAF; cl15785 526222001592 PAS fold; Region: PAS_3; pfam08447 526222001593 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222001594 metal binding site [ion binding]; metal-binding site 526222001595 active site 526222001596 I-site; other site 526222001597 PAS domain S-box; Region: sensory_box; TIGR00229 526222001598 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 526222001599 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 526222001600 PAS fold; Region: PAS_3; pfam08447 526222001601 putative active site [active] 526222001602 heme pocket [chemical binding]; other site 526222001603 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 526222001604 dimer interface [polypeptide binding]; other site 526222001605 phosphorylation site [posttranslational modification] 526222001606 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 526222001607 ATP binding site [chemical binding]; other site 526222001608 Mg2+ binding site [ion binding]; other site 526222001609 G-X-G motif; other site 526222001610 Response regulator receiver domain; Region: Response_reg; pfam00072 526222001611 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222001612 active site 526222001613 phosphorylation site [posttranslational modification] 526222001614 intermolecular recognition site; other site 526222001615 dimerization interface [polypeptide binding]; other site 526222001616 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222001617 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 526222001618 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 526222001619 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222001620 Protein export membrane protein; Region: SecD_SecF; cl14618 526222001621 Cupin domain; Region: Cupin_2; cl09118 526222001622 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222001623 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 526222001624 putative active site [active] 526222001625 heme pocket [chemical binding]; other site 526222001626 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 526222001627 dimer interface [polypeptide binding]; other site 526222001628 phosphorylation site [posttranslational modification] 526222001629 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 526222001630 ATP binding site [chemical binding]; other site 526222001631 Mg2+ binding site [ion binding]; other site 526222001632 G-X-G motif; other site 526222001633 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 526222001634 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 526222001635 active site 526222001636 catalytic tetrad [active] 526222001637 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 526222001638 Helix-turn-helix domains; Region: HTH; cl00088 526222001639 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 526222001640 dimerization interface [polypeptide binding]; other site 526222001641 substrate binding pocket [chemical binding]; other site 526222001642 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 526222001643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001644 NAD(P) binding site [chemical binding]; other site 526222001645 active site 526222001646 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 526222001647 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 526222001648 FeS/SAM binding site; other site 526222001649 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222001650 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 526222001651 S-adenosylmethionine binding site [chemical binding]; other site 526222001652 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222001653 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 526222001654 S-adenosylmethionine binding site [chemical binding]; other site 526222001655 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 526222001656 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 526222001657 PYR/PP interface [polypeptide binding]; other site 526222001658 dimer interface [polypeptide binding]; other site 526222001659 TPP binding site [chemical binding]; other site 526222001660 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 526222001661 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 526222001662 TPP-binding site [chemical binding]; other site 526222001663 dimer interface [polypeptide binding]; other site 526222001664 Phosphotransferase enzyme family; Region: APH; pfam01636 526222001665 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 526222001666 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 526222001667 FeS/SAM binding site; other site 526222001668 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222001669 Uncharacterized conserved protein [Function unknown]; Region: COG1915 526222001670 N-terminal domain of RfaE; Region: RfaE_N; cd02172 526222001671 putative active site [active] 526222001672 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 526222001673 (T/H)XGH motif; other site 526222001674 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 526222001675 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222001676 putative ribose interaction site [chemical binding]; other site 526222001677 putative ADP binding site [chemical binding]; other site 526222001678 NeuB family; Region: NeuB; cl00496 526222001679 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 526222001680 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 526222001681 Substrate binding site; other site 526222001682 Cupin domain; Region: Cupin_2; cl09118 526222001683 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 526222001684 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 526222001685 active site 526222001686 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; cd00260 526222001687 BNR repeat-like domain; Region: BNR_2; pfam13088 526222001688 Asp-box motif; other site 526222001689 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 526222001690 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 526222001691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001692 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222001693 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 526222001694 active site 526222001695 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222001696 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 526222001697 S-adenosylmethionine binding site [chemical binding]; other site 526222001698 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; cl15754 526222001699 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 526222001700 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 526222001701 PYR/PP interface [polypeptide binding]; other site 526222001702 dimer interface [polypeptide binding]; other site 526222001703 TPP binding site [chemical binding]; other site 526222001704 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 526222001705 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 526222001706 TPP-binding site [chemical binding]; other site 526222001707 dimer interface [polypeptide binding]; other site 526222001708 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 526222001709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001710 NAD(P) binding site [chemical binding]; other site 526222001711 active site 526222001712 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 526222001713 S-adenosylmethionine binding site [chemical binding]; other site 526222001714 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 526222001715 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 526222001716 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 526222001717 ligand binding site; other site 526222001718 tetramer interface; other site 526222001719 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 526222001720 active site 526222001721 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 526222001722 Predicted membrane protein [Function unknown]; Region: COG4125 526222001723 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 526222001724 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 526222001725 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 526222001726 EamA-like transporter family; Region: EamA; cl01037 526222001727 GTP-binding protein YchF; Reviewed; Region: PRK09601 526222001728 YchF GTPase; Region: YchF; cd01900 526222001729 G1 box; other site 526222001730 GTP/Mg2+ binding site [chemical binding]; other site 526222001731 Switch I region; other site 526222001732 G2 box; other site 526222001733 Switch II region; other site 526222001734 G3 box; other site 526222001735 G4 box; other site 526222001736 G5 box; other site 526222001737 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 526222001738 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 526222001739 active site 526222001740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001741 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222001742 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 526222001743 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001744 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 526222001745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001746 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 526222001747 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_6; cd08820 526222001748 putative active site [active] 526222001749 putative substrate binding site [chemical binding]; other site 526222001750 putative cosubstrate binding site; other site 526222001751 catalytic site [active] 526222001752 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 526222001753 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 526222001754 inhibitor-cofactor binding pocket; inhibition site 526222001755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222001756 catalytic residue [active] 526222001757 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 526222001758 binding surface 526222001759 TPR motif; other site 526222001760 HI0933-like protein; Region: HI0933_like; pfam03486 526222001761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001763 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 526222001764 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222001765 Response regulator receiver domain; Region: Response_reg; pfam00072 526222001766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222001767 active site 526222001768 phosphorylation site [posttranslational modification] 526222001769 intermolecular recognition site; other site 526222001770 dimerization interface [polypeptide binding]; other site 526222001771 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 526222001772 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 526222001773 FAD binding pocket [chemical binding]; other site 526222001774 FAD binding motif [chemical binding]; other site 526222001775 phosphate binding motif [ion binding]; other site 526222001776 beta-alpha-beta structure motif; other site 526222001777 NAD binding pocket [chemical binding]; other site 526222001778 Iron coordination center [ion binding]; other site 526222001779 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 526222001780 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 526222001781 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 526222001782 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 526222001783 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 526222001784 4Fe-4S binding domain; Region: Fer4; cl02805 526222001785 4Fe-4S binding domain; Region: Fer4; cl02805 526222001786 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 526222001787 Cysteine-rich domain; Region: CCG; pfam02754 526222001788 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 526222001789 Heterodisulfide reductase, subunit C [Energy production and conversion]; Region: HdrC; COG1150 526222001790 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 526222001791 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 526222001792 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 526222001793 PAS domain; Region: PAS_9; pfam13426 526222001794 putative active site [active] 526222001795 heme pocket [chemical binding]; other site 526222001796 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222001797 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222001798 dimer interface [polypeptide binding]; other site 526222001799 putative CheW interface [polypeptide binding]; other site 526222001800 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 526222001801 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 526222001802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222001803 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 526222001804 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222001805 ligand binding site [chemical binding]; other site 526222001806 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 526222001807 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 526222001808 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 526222001809 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 526222001810 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 526222001811 NADP binding site [chemical binding]; other site 526222001812 homopentamer interface [polypeptide binding]; other site 526222001813 substrate binding site [chemical binding]; other site 526222001814 active site 526222001815 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 526222001816 Organic solvent tolerance protein; Region: OstA_C; pfam04453 526222001817 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 526222001818 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 526222001819 ATP binding site [chemical binding]; other site 526222001820 Mg2+ binding site [ion binding]; other site 526222001821 G-X-G motif; other site 526222001822 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 526222001823 ATP binding site [chemical binding]; other site 526222001824 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 526222001825 alanine racemase; Reviewed; Region: alr; PRK00053 526222001826 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 526222001827 active site 526222001828 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 526222001829 dimer interface [polypeptide binding]; other site 526222001830 substrate binding site [chemical binding]; other site 526222001831 catalytic residues [active] 526222001832 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 526222001833 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222001834 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222001835 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 526222001836 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 526222001837 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 526222001838 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 526222001839 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 526222001840 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 526222001841 PAS domain; Region: PAS_9; pfam13426 526222001842 putative active site [active] 526222001843 heme pocket [chemical binding]; other site 526222001844 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222001845 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 526222001846 Walker A motif; other site 526222001847 ATP binding site [chemical binding]; other site 526222001848 Walker B motif; other site 526222001849 arginine finger; other site 526222001850 Helix-turn-helix domains; Region: HTH; cl00088 526222001851 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222001852 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 526222001853 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 526222001854 FOG: CBS domain [General function prediction only]; Region: COG0517 526222001855 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 526222001856 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 526222001857 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 526222001858 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222001859 substrate binding pocket [chemical binding]; other site 526222001860 membrane-bound complex binding site; other site 526222001861 hinge residues; other site 526222001862 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 526222001863 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 526222001864 binding surface 526222001865 TPR motif; other site 526222001866 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222001867 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222001868 Helix-turn-helix domains; Region: HTH; cl00088 526222001869 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 526222001870 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 526222001871 TPR repeat; Region: TPR_11; pfam13414 526222001872 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 526222001873 binding surface 526222001874 TPR motif; other site 526222001875 TPR repeat; Region: TPR_11; pfam13414 526222001876 Arginase family; Region: Arginase; cl00306 526222001877 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 526222001878 metal-binding site [ion binding] 526222001879 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 526222001880 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 526222001881 metal-binding site [ion binding] 526222001882 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 526222001883 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 526222001884 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222001885 active site 526222001886 shikimate kinase; Reviewed; Region: aroK; PRK00131 526222001887 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 526222001888 ADP binding site [chemical binding]; other site 526222001889 magnesium binding site [ion binding]; other site 526222001890 putative shikimate binding site; other site 526222001891 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 526222001892 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 526222001893 putative dimer interface [polypeptide binding]; other site 526222001894 active site pocket [active] 526222001895 putative cataytic base [active] 526222001896 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 526222001897 dimerization interface [polypeptide binding]; other site 526222001898 putative ATP binding site [chemical binding]; other site 526222001899 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 526222001900 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 526222001901 domain interfaces; other site 526222001902 active site 526222001903 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 526222001904 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 526222001905 S-adenosylmethionine binding site [chemical binding]; other site 526222001906 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 526222001907 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 526222001908 Found in ATP-dependent protease La (LON); Region: LON; smart00464 526222001909 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 526222001910 Walker A motif; other site 526222001911 ATP binding site [chemical binding]; other site 526222001912 Walker B motif; other site 526222001913 arginine finger; other site 526222001914 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 526222001915 Acylphosphatase; Region: Acylphosphatase; cl00551 526222001916 hypothetical protein; Reviewed; Region: PRK00024 526222001917 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 526222001918 helix-hairpin-helix signature motif; other site 526222001919 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 526222001920 MPN+ (JAMM) motif; other site 526222001921 Zinc-binding site [ion binding]; other site 526222001922 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 526222001923 Lipopolysaccharide-assembly; Region: LptE; cl01125 526222001924 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 526222001925 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 526222001926 HIGH motif; other site 526222001927 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 526222001928 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 526222001929 active site 526222001930 KMSKS motif; other site 526222001931 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 526222001932 tRNA binding surface [nucleotide binding]; other site 526222001933 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 526222001934 putative RNA binding site [nucleotide binding]; other site 526222001935 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 526222001936 homopentamer interface [polypeptide binding]; other site 526222001937 active site 526222001938 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 526222001939 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 526222001940 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 526222001941 dimerization interface [polypeptide binding]; other site 526222001942 active site 526222001943 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 526222001944 Lumazine binding domain; Region: Lum_binding; pfam00677 526222001945 Lumazine binding domain; Region: Lum_binding; pfam00677 526222001946 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 526222001947 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 526222001948 catalytic motif [active] 526222001949 Zn binding site [ion binding]; other site 526222001950 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 526222001951 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 526222001952 catalytic motif [active] 526222001953 Zn binding site [ion binding]; other site 526222001954 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 526222001955 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 526222001956 dimer interface [polypeptide binding]; other site 526222001957 glycine-pyridoxal phosphate binding site [chemical binding]; other site 526222001958 active site 526222001959 folate binding site [chemical binding]; other site 526222001960 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 526222001961 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 526222001962 dimer interface [polypeptide binding]; other site 526222001963 active site 526222001964 Phosphopantetheine attachment site; Region: PP-binding; cl09936 526222001965 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 526222001966 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 526222001967 NAD(P) binding site [chemical binding]; other site 526222001968 homotetramer interface [polypeptide binding]; other site 526222001969 homodimer interface [polypeptide binding]; other site 526222001970 active site 526222001971 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 526222001972 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 526222001973 dimer interface [polypeptide binding]; other site 526222001974 active site 526222001975 CoA binding pocket [chemical binding]; other site 526222001976 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 526222001977 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 526222001978 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 526222001979 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 526222001980 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 526222001981 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 526222001982 NMT1-like family; Region: NMT1_2; cl15260 526222001983 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 526222001984 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 526222001985 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 526222001986 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222001987 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 526222001988 substrate binding pocket [chemical binding]; other site 526222001989 membrane-bound complex binding site; other site 526222001990 hinge residues; other site 526222001991 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 526222001992 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 526222001993 HIGH motif; other site 526222001994 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 526222001995 active site 526222001996 KMSKS motif; other site 526222001997 NifU-like domain; Region: NifU; cl00484 526222001998 HDOD domain; Region: HDOD; pfam08668 526222001999 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222002000 NMT1-like family; Region: NMT1_2; cl15260 526222002001 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 526222002002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222002003 dimer interface [polypeptide binding]; other site 526222002004 conserved gate region; other site 526222002005 putative PBP binding loops; other site 526222002006 ABC-ATPase subunit interface; other site 526222002007 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 526222002008 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 526222002009 Walker A/P-loop; other site 526222002010 ATP binding site [chemical binding]; other site 526222002011 Q-loop/lid; other site 526222002012 ABC transporter signature motif; other site 526222002013 Walker B; other site 526222002014 D-loop; other site 526222002015 H-loop/switch region; other site 526222002016 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 526222002017 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222002018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222002019 active site 526222002020 phosphorylation site [posttranslational modification] 526222002021 intermolecular recognition site; other site 526222002022 dimerization interface [polypeptide binding]; other site 526222002023 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 526222002024 Walker A motif; other site 526222002025 ATP binding site [chemical binding]; other site 526222002026 Walker B motif; other site 526222002027 arginine finger; other site 526222002028 Helix-turn-helix domains; Region: HTH; cl00088 526222002029 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222002030 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 526222002031 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 526222002032 dimer interface [polypeptide binding]; other site 526222002033 phosphorylation site [posttranslational modification] 526222002034 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 526222002035 ATP binding site [chemical binding]; other site 526222002036 Mg2+ binding site [ion binding]; other site 526222002037 G-X-G motif; other site 526222002038 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 526222002039 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 526222002040 dimer interface [polypeptide binding]; other site 526222002041 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 526222002042 dimer interface [polypeptide binding]; other site 526222002043 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222002044 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 526222002045 Walker A/P-loop; other site 526222002046 ATP binding site [chemical binding]; other site 526222002047 Q-loop/lid; other site 526222002048 ABC transporter signature motif; other site 526222002049 Walker B; other site 526222002050 D-loop; other site 526222002051 H-loop/switch region; other site 526222002052 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222002053 FtsX-like permease family; Region: FtsX; cl15850 526222002054 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 526222002055 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 526222002056 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 526222002057 B12 binding site [chemical binding]; other site 526222002058 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 526222002059 FeS/SAM binding site; other site 526222002060 cell division protein FtsZ; Validated; Region: PRK09330 526222002061 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 526222002062 nucleotide binding site [chemical binding]; other site 526222002063 SulA interaction site; other site 526222002064 cell division protein FtsA; Region: ftsA; TIGR01174 526222002065 Cell division protein FtsA; Region: FtsA; cl11496 526222002066 Cell division protein FtsA; Region: FtsA; cl11496 526222002067 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 526222002068 Cell division protein FtsQ; Region: FtsQ; pfam03799 526222002069 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 526222002070 FAD binding domain; Region: FAD_binding_4; pfam01565 526222002071 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 526222002072 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 526222002073 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 526222002074 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222002075 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222002076 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 526222002077 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 526222002078 active site 526222002079 homodimer interface [polypeptide binding]; other site 526222002080 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 526222002081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002082 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 526222002083 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222002084 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222002085 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 526222002086 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 526222002087 Mg++ binding site [ion binding]; other site 526222002088 putative catalytic motif [active] 526222002089 putative substrate binding site [chemical binding]; other site 526222002090 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 526222002091 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 526222002092 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222002093 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222002094 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 526222002095 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 526222002096 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222002097 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222002098 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 526222002099 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 526222002100 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 526222002101 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 526222002102 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 526222002103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002104 cell division protein MraZ; Reviewed; Region: PRK00326 526222002105 MraZ protein; Region: MraZ; pfam02381 526222002106 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222002107 Zn2+ binding site [ion binding]; other site 526222002108 Mg2+ binding site [ion binding]; other site 526222002109 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 526222002110 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 526222002111 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 526222002112 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222002113 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 526222002114 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 526222002115 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 526222002116 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 526222002117 TRAM domain; Region: TRAM; cl01282 526222002118 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 526222002119 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 526222002120 S-adenosylmethionine binding site [chemical binding]; other site 526222002121 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 526222002122 Sporulation related domain; Region: SPOR; cl10051 526222002123 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 526222002124 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 526222002125 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 526222002126 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 526222002127 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 526222002128 RNA binding site [nucleotide binding]; other site 526222002129 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 526222002130 RNA binding site [nucleotide binding]; other site 526222002131 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 526222002132 RNA binding site [nucleotide binding]; other site 526222002133 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 526222002134 RNA binding site [nucleotide binding]; other site 526222002135 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 526222002136 RNA binding site [nucleotide binding]; other site 526222002137 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 526222002138 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 526222002139 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 526222002140 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 526222002141 Transglycosylase; Region: Transgly; cl07896 526222002142 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 526222002143 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 526222002144 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 526222002145 MG2 domain; Region: A2M_N; pfam01835 526222002146 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 526222002147 Alpha-2-macroglobulin family; Region: A2M; pfam00207 526222002148 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 526222002149 surface patch; other site 526222002150 thioester region; other site 526222002151 Cache domain; Region: Cache_2; cl07034 526222002152 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 526222002153 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 526222002154 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222002155 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 526222002156 dimer interface [polypeptide binding]; other site 526222002157 phosphorylation site [posttranslational modification] 526222002158 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 526222002159 ATP binding site [chemical binding]; other site 526222002160 Mg2+ binding site [ion binding]; other site 526222002161 G-X-G motif; other site 526222002162 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222002163 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222002164 putative substrate translocation pore; other site 526222002165 ApbE family; Region: ApbE; cl00643 526222002166 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222002167 Helix-turn-helix domains; Region: HTH; cl00088 526222002168 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 526222002169 Iron-sulfur protein interface; other site 526222002170 proximal heme binding site [chemical binding]; other site 526222002171 distal heme binding site [chemical binding]; other site 526222002172 dimer interface [polypeptide binding]; other site 526222002173 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 526222002174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002175 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 526222002176 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 526222002177 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 526222002178 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 526222002179 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 526222002180 Fumarase C-terminus; Region: Fumerase_C; cl00795 526222002181 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 526222002182 Malic enzyme, N-terminal domain; Region: malic; pfam00390 526222002183 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 526222002184 putative NAD(P) binding site [chemical binding]; other site 526222002185 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 526222002186 transmembrane helices; other site 526222002187 phosphate acetyltransferase; Reviewed; Region: PRK05632 526222002188 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222002189 DRTGG domain; Region: DRTGG; cl12147 526222002190 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 526222002191 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 526222002192 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 526222002193 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 526222002194 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 526222002195 dimer interface [polypeptide binding]; other site 526222002196 PYR/PP interface [polypeptide binding]; other site 526222002197 TPP binding site [chemical binding]; other site 526222002198 substrate binding site [chemical binding]; other site 526222002199 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 526222002200 Domain of unknown function; Region: EKR; cl11037 526222002201 4Fe-4S binding domain; Region: Fer4; cl02805 526222002202 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 526222002203 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 526222002204 TPP-binding site [chemical binding]; other site 526222002205 dimer interface [polypeptide binding]; other site 526222002206 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 526222002207 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222002208 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 526222002209 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 526222002210 Active Sites [active] 526222002211 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 526222002212 ligand binding site [chemical binding]; other site 526222002213 active site 526222002214 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 526222002215 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 526222002216 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 526222002217 prolyl-tRNA synthetase; Provisional; Region: PRK09194 526222002218 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 formation of...; Region: ProRS_core_prok; cd00779 526222002219 dimer interface [polypeptide binding]; other site 526222002220 motif 1; other site 526222002221 active site 526222002222 motif 2; other site 526222002223 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 526222002224 putative deacylase active site [active] 526222002225 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 attaches...; Region: class_II_aaRS-like_core; cl00268 526222002226 active site 526222002227 motif 3; other site 526222002228 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 526222002229 anticodon binding site; other site 526222002230 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 526222002231 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 526222002232 generic binding surface II; other site 526222002233 generic binding surface I; other site 526222002234 Peptidase family M23; Region: Peptidase_M23; pfam01551 526222002235 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 526222002236 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 526222002237 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 526222002238 substrate binding pocket [chemical binding]; other site 526222002239 chain length determination region; other site 526222002240 substrate-Mg2+ binding site; other site 526222002241 catalytic residues [active] 526222002242 aspartate-rich region 1; other site 526222002243 active site lid residues [active] 526222002244 aspartate-rich region 2; other site 526222002245 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 526222002246 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 526222002247 TPP-binding site; other site 526222002248 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 526222002249 PYR/PP interface [polypeptide binding]; other site 526222002250 dimer interface [polypeptide binding]; other site 526222002251 TPP binding site [chemical binding]; other site 526222002252 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 526222002253 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 526222002254 AMP-binding enzyme; Region: AMP-binding; cl15778 526222002255 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222002256 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 526222002257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222002258 active site 526222002259 phosphorylation site [posttranslational modification] 526222002260 intermolecular recognition site; other site 526222002261 dimerization interface [polypeptide binding]; other site 526222002262 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 526222002263 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222002264 substrate binding pocket [chemical binding]; other site 526222002265 membrane-bound complex binding site; other site 526222002266 hinge residues; other site 526222002267 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 526222002268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002269 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 526222002270 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 526222002271 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 526222002272 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 526222002273 Helix-turn-helix domains; Region: HTH; cl00088 526222002274 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 526222002275 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 526222002276 inhibitor-cofactor binding pocket; inhibition site 526222002277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222002278 catalytic residue [active] 526222002279 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 526222002280 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 526222002281 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 526222002282 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 526222002283 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 526222002284 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 526222002285 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222002286 heme-binding residues [chemical binding]; other site 526222002287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002288 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 526222002289 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 526222002290 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 526222002291 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 526222002292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002293 nucleosidase; Provisional; Region: PRK05634 526222002294 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 526222002295 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 526222002296 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 526222002297 substrate binding pocket [chemical binding]; other site 526222002298 chain length determination region; other site 526222002299 substrate-Mg2+ binding site; other site 526222002300 catalytic residues [active] 526222002301 aspartate-rich region 1; other site 526222002302 active site lid residues [active] 526222002303 aspartate-rich region 2; other site 526222002304 HDOD domain; Region: HDOD; pfam08668 526222002305 PAS domain S-box; Region: sensory_box; TIGR00229 526222002306 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 526222002307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002308 metal binding site [ion binding]; metal-binding site 526222002309 active site 526222002310 I-site; other site 526222002311 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 526222002312 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 526222002313 dimerization interface [polypeptide binding]; other site 526222002314 ATP binding site [chemical binding]; other site 526222002315 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 526222002316 dimerization interface [polypeptide binding]; other site 526222002317 ATP binding site [chemical binding]; other site 526222002318 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 526222002319 PHP-associated; Region: PHP_C; pfam13263 526222002320 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 526222002321 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 526222002322 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 526222002323 ring oligomerisation interface [polypeptide binding]; other site 526222002324 ATP/Mg binding site [chemical binding]; other site 526222002325 stacking interactions; other site 526222002326 hinge regions; other site 526222002327 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 526222002328 oligomerisation interface [polypeptide binding]; other site 526222002329 mobile loop; other site 526222002330 roof hairpin; other site 526222002331 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 526222002332 IHF dimer interface [polypeptide binding]; other site 526222002333 IHF - DNA interface [nucleotide binding]; other site 526222002334 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 526222002335 MatE; Region: MatE; cl10513 526222002336 MatE; Region: MatE; cl10513 526222002337 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 526222002338 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222002339 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 526222002340 putative active site [active] 526222002341 heme pocket [chemical binding]; other site 526222002342 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 526222002343 dimer interface [polypeptide binding]; other site 526222002344 phosphorylation site [posttranslational modification] 526222002345 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 526222002346 ATP binding site [chemical binding]; other site 526222002347 Mg2+ binding site [ion binding]; other site 526222002348 G-X-G motif; other site 526222002349 Response regulator receiver domain; Region: Response_reg; pfam00072 526222002350 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222002351 active site 526222002352 phosphorylation site [posttranslational modification] 526222002353 intermolecular recognition site; other site 526222002354 dimerization interface [polypeptide binding]; other site 526222002355 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 526222002356 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 526222002357 active site 526222002358 catalytic residues [active] 526222002359 metal binding site [ion binding]; metal-binding site 526222002360 homodimer binding site [polypeptide binding]; other site 526222002361 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 526222002362 carboxyltransferase (CT) interaction site; other site 526222002363 biotinylation site [posttranslational modification]; other site 526222002364 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 526222002365 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 526222002366 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 526222002367 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 526222002368 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 526222002369 Protein of unknown function (DUF523); Region: DUF523; cl00733 526222002370 Flagellin N-methylase; Region: FliB; cl00497 526222002371 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 526222002372 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 526222002373 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 526222002374 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 526222002375 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 526222002376 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222002377 Amidase; Region: Amidase; cl11426 526222002378 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 526222002379 catalytic triad [active] 526222002380 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222002381 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 526222002382 FecR protein; Region: FecR; pfam04773 526222002383 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 526222002384 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 526222002385 FecR protein; Region: FecR; pfam04773 526222002386 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 526222002387 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 526222002388 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 526222002389 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 526222002390 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 526222002391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 526222002392 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 526222002393 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 526222002394 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 526222002395 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 526222002396 binding surface 526222002397 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222002398 TPR motif; other site 526222002399 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222002400 TPR repeat; Region: TPR_11; pfam13414 526222002401 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 526222002402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002403 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; cl15357 526222002404 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 526222002405 Cation transport protein; Region: TrkH; cl10514 526222002406 ABC transporter ATPase component; Reviewed; Region: PRK11147 526222002407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222002408 Walker A/P-loop; other site 526222002409 ATP binding site [chemical binding]; other site 526222002410 Q-loop/lid; other site 526222002411 ABC transporter signature motif; other site 526222002412 Walker B; other site 526222002413 D-loop; other site 526222002414 H-loop/switch region; other site 526222002415 ABC transporter; Region: ABC_tran_2; pfam12848 526222002416 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 526222002417 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 526222002418 putative binding surface; other site 526222002419 active site 526222002420 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222002421 NeuB family; Region: NeuB; cl00496 526222002422 Chorismate mutase type II; Region: CM_2; cl00693 526222002423 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 526222002424 active site 526222002425 dimer interface [polypeptide binding]; other site 526222002426 metal binding site [ion binding]; metal-binding site 526222002427 cystathionine beta-lyase; Provisional; Region: PRK05967 526222002428 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 526222002429 homodimer interface [polypeptide binding]; other site 526222002430 substrate-cofactor binding pocket; other site 526222002431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222002432 catalytic residue [active] 526222002433 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 526222002434 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 526222002435 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 526222002436 PilZ domain; Region: PilZ; cl01260 526222002437 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 526222002438 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 526222002439 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 526222002440 THF binding site; other site 526222002441 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 526222002442 substrate binding site [chemical binding]; other site 526222002443 THF binding site; other site 526222002444 zinc-binding site [ion binding]; other site 526222002445 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 526222002446 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 526222002447 FAD binding site [chemical binding]; other site 526222002448 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222002449 dimer interface [polypeptide binding]; other site 526222002450 conserved gate region; other site 526222002451 putative PBP binding loops; other site 526222002452 ABC-ATPase subunit interface; other site 526222002453 NMT1-like family; Region: NMT1_2; cl15260 526222002454 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 526222002455 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 526222002456 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 526222002457 Walker A/P-loop; other site 526222002458 ATP binding site [chemical binding]; other site 526222002459 Q-loop/lid; other site 526222002460 ABC transporter signature motif; other site 526222002461 Walker B; other site 526222002462 D-loop; other site 526222002463 H-loop/switch region; other site 526222002464 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 526222002465 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 526222002466 Cytochrome c; Region: Cytochrom_C; cl11414 526222002467 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 526222002468 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 526222002469 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 526222002470 ATP binding site [chemical binding]; other site 526222002471 Mg++ binding site [ion binding]; other site 526222002472 motif III; other site 526222002473 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 526222002474 nucleotide binding region [chemical binding]; other site 526222002475 ATP-binding site [chemical binding]; other site 526222002476 DbpA RNA binding domain; Region: DbpA; pfam03880 526222002477 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 526222002478 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 526222002479 homodimer interface [polypeptide binding]; other site 526222002480 putative active site [active] 526222002481 catalytic site [active] 526222002482 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 526222002483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 526222002484 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 526222002485 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 526222002486 TSCPD domain; Region: TSCPD; cl14834 526222002487 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 526222002488 dimer interface [polypeptide binding]; other site 526222002489 Citrate synthase; Region: Citrate_synt; pfam00285 526222002490 active site 526222002491 citrylCoA binding site [chemical binding]; other site 526222002492 NADH binding [chemical binding]; other site 526222002493 cationic pore residues; other site 526222002494 oxalacetate/citrate binding site [chemical binding]; other site 526222002495 coenzyme A binding site [chemical binding]; other site 526222002496 catalytic triad [active] 526222002497 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 526222002498 PAS domain; Region: PAS_9; pfam13426 526222002499 putative active site [active] 526222002500 heme pocket [chemical binding]; other site 526222002501 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222002502 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 526222002503 Walker A motif; other site 526222002504 ATP binding site [chemical binding]; other site 526222002505 Walker B motif; other site 526222002506 arginine finger; other site 526222002507 Helix-turn-helix domains; Region: HTH; cl00088 526222002508 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 526222002509 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 526222002510 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 526222002511 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 526222002512 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 526222002513 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 526222002514 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 526222002515 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 526222002516 S-adenosylmethionine binding site [chemical binding]; other site 526222002517 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 526222002518 active site 1 [active] 526222002519 dimer interface [polypeptide binding]; other site 526222002520 hexamer interface [polypeptide binding]; other site 526222002521 active site 2 [active] 526222002522 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 526222002523 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 526222002524 dimer interface [polypeptide binding]; other site 526222002525 putative functional site; other site 526222002526 putative MPT binding site; other site 526222002527 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 526222002528 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 526222002529 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 526222002530 dimer interface [polypeptide binding]; other site 526222002531 putative functional site; other site 526222002532 putative MPT binding site; other site 526222002533 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 526222002534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222002535 Putative Fe-S cluster; Region: FeS; pfam04060 526222002536 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 526222002537 homohexameric interface [polypeptide binding]; other site 526222002538 feedback inhibition sensing region; other site 526222002539 nucleotide binding site [chemical binding]; other site 526222002540 N-acetyl-L-glutamate binding site [chemical binding]; other site 526222002541 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 526222002542 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 526222002543 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 526222002544 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 526222002545 PilZ domain; Region: PilZ; cl01260 526222002546 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222002547 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222002548 putative substrate translocation pore; other site 526222002549 Ion channel; Region: Ion_trans_2; cl11596 526222002550 gamma-glutamyl kinase; Provisional; Region: PRK05429 526222002551 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 526222002552 nucleotide binding site [chemical binding]; other site 526222002553 homotetrameric interface [polypeptide binding]; other site 526222002554 putative phosphate binding site [ion binding]; other site 526222002555 putative allosteric binding site; other site 526222002556 PUA domain; Region: PUA; cl00607 526222002557 GTPase CgtA; Reviewed; Region: obgE; PRK12299 526222002558 GTP1/OBG; Region: GTP1_OBG; pfam01018 526222002559 Obg GTPase; Region: Obg; cd01898 526222002560 G1 box; other site 526222002561 GTP/Mg2+ binding site [chemical binding]; other site 526222002562 Switch I region; other site 526222002563 G2 box; other site 526222002564 G3 box; other site 526222002565 Switch II region; other site 526222002566 G4 box; other site 526222002567 G5 box; other site 526222002568 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 526222002569 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 526222002570 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 526222002571 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 526222002572 FeS/SAM binding site; other site 526222002573 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222002574 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 526222002575 S-adenosylmethionine binding site [chemical binding]; other site 526222002576 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 526222002577 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222002578 active site 526222002579 Response regulator receiver domain; Region: Response_reg; pfam00072 526222002580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222002581 active site 526222002582 phosphorylation site [posttranslational modification] 526222002583 intermolecular recognition site; other site 526222002584 dimerization interface [polypeptide binding]; other site 526222002585 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222002586 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222002587 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222002588 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 526222002589 putative FMN binding site [chemical binding]; other site 526222002590 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 526222002591 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 526222002592 Walker A/P-loop; other site 526222002593 ATP binding site [chemical binding]; other site 526222002594 Q-loop/lid; other site 526222002595 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 526222002596 Q-loop/lid; other site 526222002597 ABC transporter signature motif; other site 526222002598 Walker B; other site 526222002599 D-loop; other site 526222002600 H-loop/switch region; other site 526222002601 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 526222002602 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222002603 dimer interface [polypeptide binding]; other site 526222002604 conserved gate region; other site 526222002605 putative PBP binding loops; other site 526222002606 ABC-ATPase subunit interface; other site 526222002607 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 526222002608 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222002609 dimer interface [polypeptide binding]; other site 526222002610 conserved gate region; other site 526222002611 ABC-ATPase subunit interface; other site 526222002612 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222002613 Helix-turn-helix domains; Region: HTH; cl00088 526222002614 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 526222002615 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 526222002616 Protein of unknown function (DUF328); Region: DUF328; cl01143 526222002617 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 526222002618 S-adenosylmethionine binding site [chemical binding]; other site 526222002619 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 526222002620 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222002621 FeS/SAM binding site; other site 526222002622 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222002623 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 526222002624 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222002625 FeS/SAM binding site; other site 526222002626 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222002627 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 526222002628 dimer interface [polypeptide binding]; other site 526222002629 active site 526222002630 N-terminal domain of RfaE; Region: RfaE_N; cd02172 526222002631 putative active site [active] 526222002632 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 526222002633 (T/H)XGH motif; other site 526222002634 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222002635 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 526222002636 substrate binding site [chemical binding]; other site 526222002637 ATP binding site [chemical binding]; other site 526222002638 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 526222002639 PAS domain; Region: PAS_9; pfam13426 526222002640 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222002641 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002642 dimer interface [polypeptide binding]; other site 526222002643 putative CheW interface [polypeptide binding]; other site 526222002644 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222002645 Helix-turn-helix domains; Region: HTH; cl00088 526222002646 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222002647 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 526222002648 4Fe-4S binding domain; Region: Fer4; cl02805 526222002649 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 526222002650 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 526222002651 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 526222002652 putative [4Fe-4S] binding site [ion binding]; other site 526222002653 putative molybdopterin cofactor binding site [chemical binding]; other site 526222002654 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 526222002655 molybdopterin cofactor binding site; other site 526222002656 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 526222002657 zinc binding site [ion binding]; other site 526222002658 putative ligand binding site [chemical binding]; other site 526222002659 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 526222002660 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 526222002661 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222002662 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 526222002663 dimer interface [polypeptide binding]; other site 526222002664 phosphorylation site [posttranslational modification] 526222002665 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 526222002666 ATP binding site [chemical binding]; other site 526222002667 Mg2+ binding site [ion binding]; other site 526222002668 G-X-G motif; other site 526222002669 Sel1 repeat; Region: Sel1; cl02723 526222002670 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 526222002671 Sel1 repeat; Region: Sel1; cl02723 526222002672 Sel1 repeat; Region: Sel1; cl02723 526222002673 Sel1 repeat; Region: Sel1; cl02723 526222002674 Sel1 repeat; Region: Sel1; cl02723 526222002675 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 526222002676 Sel1 repeat; Region: Sel1; cl02723 526222002677 Sel1 repeat; Region: Sel1; cl02723 526222002678 Sel1 repeat; Region: Sel1; cl02723 526222002679 Sel1 repeat; Region: Sel1; cl02723 526222002680 Sel1 repeat; Region: Sel1; cl02723 526222002681 Sel1 repeat; Region: Sel1; cl02723 526222002682 Sel1 repeat; Region: Sel1; cl02723 526222002683 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 526222002684 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 526222002685 active site 526222002686 catalytic triad [active] 526222002687 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222002688 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222002689 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222002690 active site 526222002691 phosphorylation site [posttranslational modification] 526222002692 intermolecular recognition site; other site 526222002693 dimerization interface [polypeptide binding]; other site 526222002694 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 526222002695 cyclase homology domain; Region: CHD; cd07302 526222002696 nucleotidyl binding site; other site 526222002697 metal binding site [ion binding]; metal-binding site 526222002698 dimer interface [polypeptide binding]; other site 526222002699 FOG: CBS domain [General function prediction only]; Region: COG0517 526222002700 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 526222002701 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222002702 CHASE3 domain; Region: CHASE3; cl05000 526222002703 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 526222002704 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002705 dimer interface [polypeptide binding]; other site 526222002706 putative CheW interface [polypeptide binding]; other site 526222002707 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 526222002708 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 526222002709 active site 526222002710 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 526222002711 active site 526222002712 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 526222002713 active site 526222002714 dimer interfaces [polypeptide binding]; other site 526222002715 catalytic residues [active] 526222002716 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 526222002717 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 526222002718 decamer (pentamer of dimers) interface [polypeptide binding]; other site 526222002719 catalytic triad [active] 526222002720 dimer interface [polypeptide binding]; other site 526222002721 peroxidatic and resolving cysteines [active] 526222002722 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 526222002723 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 526222002724 nucleotide binding site [chemical binding]; other site 526222002725 substrate binding site [chemical binding]; other site 526222002726 Helix-turn-helix domains; Region: HTH; cl00088 526222002727 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG1571 526222002728 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222002729 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 526222002730 substrate binding pocket [chemical binding]; other site 526222002731 membrane-bound complex binding site; other site 526222002732 hinge residues; other site 526222002733 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 526222002734 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 526222002735 Helix-turn-helix domains; Region: HTH; cl00088 526222002736 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222002737 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 526222002738 putative active site [active] 526222002739 metal binding site [ion binding]; metal-binding site 526222002740 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 526222002741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002742 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222002743 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 526222002744 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 526222002745 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; cl15357 526222002746 transmembrane helices; other site 526222002747 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 526222002748 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 526222002749 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 526222002750 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222002751 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002752 dimer interface [polypeptide binding]; other site 526222002753 putative CheW interface [polypeptide binding]; other site 526222002754 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222002755 Peptidase family M48; Region: Peptidase_M48; cl12018 526222002756 TPR repeat; Region: TPR_11; pfam13414 526222002757 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 526222002758 binding surface 526222002759 TPR motif; other site 526222002760 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222002761 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 526222002762 Walker A/P-loop; other site 526222002763 ATP binding site [chemical binding]; other site 526222002764 Q-loop/lid; other site 526222002765 ABC transporter signature motif; other site 526222002766 Walker B; other site 526222002767 D-loop; other site 526222002768 H-loop/switch region; other site 526222002769 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 526222002770 PAS domain S-box; Region: sensory_box; TIGR00229 526222002771 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 526222002772 putative active site [active] 526222002773 heme pocket [chemical binding]; other site 526222002774 GAF domain; Region: GAF_2; pfam13185 526222002775 GAF domain; Region: GAF; cl15785 526222002776 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 526222002777 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 526222002778 PAS fold; Region: PAS_4; pfam08448 526222002779 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002780 metal binding site [ion binding]; metal-binding site 526222002781 active site 526222002782 I-site; other site 526222002783 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 526222002784 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 526222002785 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 526222002786 dimerization interface [polypeptide binding]; other site 526222002787 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222002788 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002789 dimer interface [polypeptide binding]; other site 526222002790 putative CheW interface [polypeptide binding]; other site 526222002791 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 526222002792 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222002793 heme-binding residues [chemical binding]; other site 526222002794 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 526222002795 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 526222002796 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 526222002797 FMN-binding domain; Region: FMN_bind; cl01081 526222002798 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 526222002799 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 526222002800 ferredoxin; Validated; Region: PRK07118 526222002801 4Fe-4S binding domain; Region: Fer4; cl02805 526222002802 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 526222002803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002804 ApbE family; Region: ApbE; cl00643 526222002805 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002806 metal binding site [ion binding]; metal-binding site 526222002807 active site 526222002808 I-site; other site 526222002809 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 526222002810 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 526222002811 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222002812 substrate binding pocket [chemical binding]; other site 526222002813 membrane-bound complex binding site; other site 526222002814 hinge residues; other site 526222002815 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002816 metal binding site [ion binding]; metal-binding site 526222002817 active site 526222002818 I-site; other site 526222002819 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 526222002820 Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria; Region: PBP1_BmpA_like; cd06304 526222002821 ligand binding site [chemical binding]; other site 526222002822 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 526222002823 catalytic residues [active] 526222002824 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 526222002825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222002826 metal binding site [ion binding]; metal-binding site 526222002827 active site 526222002828 I-site; other site 526222002829 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 526222002830 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 526222002831 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222002832 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222002833 dimer interface [polypeptide binding]; other site 526222002834 putative CheW interface [polypeptide binding]; other site 526222002835 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 526222002836 octamerization interface [polypeptide binding]; other site 526222002837 diferric-oxygen binding site [ion binding]; other site 526222002838 Ion channel; Region: Ion_trans_2; cl11596 526222002839 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 526222002840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222002841 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; cl15357 526222002842 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 526222002843 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 526222002844 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 526222002845 sensor protein BasS/PmrB; Provisional; Region: PRK10755 526222002846 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 526222002847 ATP binding site [chemical binding]; other site 526222002848 Mg2+ binding site [ion binding]; other site 526222002849 G-X-G motif; other site 526222002850 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 526222002851 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 526222002852 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; cl00284 526222002853 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 526222002854 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222002855 active site 526222002856 phosphorylation site [posttranslational modification] 526222002857 intermolecular recognition site; other site 526222002858 dimerization interface [polypeptide binding]; other site 526222002859 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 526222002860 DNA binding site [nucleotide binding] 526222002861 flagellin; Provisional; Region: PRK12802 526222002862 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222002863 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222002864 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 526222002865 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222002866 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 526222002867 DNA binding residues [nucleotide binding] 526222002868 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 526222002869 FlgD Ig-like domain; Region: FlgD_ig; cl15790 526222002870 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 526222002871 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 526222002872 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 526222002873 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222002874 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 526222002875 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222002876 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 526222002877 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222002878 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 526222002879 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 526222002880 Cupin domain; Region: Cupin_2; cl09118 526222002881 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222002882 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222002883 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222002884 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 526222002885 dimer interface [polypeptide binding]; other site 526222002886 putative tRNA-binding site [nucleotide binding]; other site 526222002887 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222002888 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222002889 Protein export membrane protein; Region: SecD_SecF; cl14618 526222002890 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222002891 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 526222002892 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 526222002893 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222002894 Helix-turn-helix domains; Region: HTH; cl00088 526222002895 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222002896 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 526222002897 putative substrate translocation pore; other site 526222002898 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 526222002899 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 526222002900 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 526222002901 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 526222002902 DNA binding site [nucleotide binding] 526222002903 active site 526222002904 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222002905 active site 526222002906 phosphorylation site [posttranslational modification] 526222002907 intermolecular recognition site; other site 526222002908 dimerization interface [polypeptide binding]; other site 526222002909 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 526222002910 binding surface 526222002911 TPR motif; other site 526222002912 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 526222002913 binding surface 526222002914 TPR motif; other site 526222002915 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222002916 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 526222002917 PAS fold; Region: PAS_4; pfam08448 526222002918 GAF domain; Region: GAF_2; pfam13185 526222002919 GAF domain; Region: GAF; cl15785 526222002920 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 526222002921 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222002922 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 526222002923 dimer interface [polypeptide binding]; other site 526222002924 phosphorylation site [posttranslational modification] 526222002925 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 526222002926 ATP binding site [chemical binding]; other site 526222002927 Mg2+ binding site [ion binding]; other site 526222002928 G-X-G motif; other site 526222002929 Response regulator receiver domain; Region: Response_reg; pfam00072 526222002930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222002931 active site 526222002932 phosphorylation site [posttranslational modification] 526222002933 intermolecular recognition site; other site 526222002934 dimerization interface [polypeptide binding]; other site 526222002935 Protein of unknown function (DUF523); Region: DUF523; cl00733 526222002936 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 526222002937 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 526222002938 NADH(P)-binding; Region: NAD_binding_10; pfam13460 526222002939 putative NAD(P) binding site [chemical binding]; other site 526222002940 putative active site [active] 526222002941 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 526222002942 photolyase PhrII; Region: phr2; TIGR00591 526222002943 DNA photolyase; Region: DNA_photolyase; pfam00875 526222002944 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 526222002945 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 526222002946 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 526222002947 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 526222002948 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 526222002949 putative ligand binding site [chemical binding]; other site 526222002950 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 526222002951 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 526222002952 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 526222002953 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 526222002954 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 526222002955 active site 526222002956 EamA-like transporter family; Region: EamA; cl01037 526222002957 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 526222002958 catalytic triad [active] 526222002959 conserved cis-peptide bond; other site 526222002960 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 526222002961 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 526222002962 conserved cys residue [active] 526222002963 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222002964 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222002965 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222002966 VacJ like lipoprotein; Region: VacJ; cl01073 526222002967 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 526222002968 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 526222002969 Helix-turn-helix domains; Region: HTH; cl00088 526222002970 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 526222002971 S-adenosylmethionine binding site [chemical binding]; other site 526222002972 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 526222002973 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 526222002974 active site 526222002975 motif I; other site 526222002976 motif II; other site 526222002977 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 526222002978 TPR repeat; Region: TPR_11; pfam13414 526222002979 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 526222002980 binding surface 526222002981 TPR motif; other site 526222002982 TPR repeat; Region: TPR_11; pfam13414 526222002983 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 526222002984 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 526222002985 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 526222002986 catalytic site [active] 526222002987 subunit interface [polypeptide binding]; other site 526222002988 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 526222002989 Ligand binding site; other site 526222002990 oligomer interface; other site 526222002991 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 526222002992 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 526222002993 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 526222002994 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 526222002995 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222002996 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222002997 DsrC like protein; Region: DsrC; cl01101 526222002998 GAF domain; Region: GAF; cl15785 526222002999 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 526222003000 GAF domain; Region: GAF; cl15785 526222003001 sensory histidine kinase AtoS; Provisional; Region: PRK11360 526222003002 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 526222003003 cyclase homology domain; Region: CHD; cd07302 526222003004 nucleotidyl binding site; other site 526222003005 metal binding site [ion binding]; metal-binding site 526222003006 dimer interface [polypeptide binding]; other site 526222003007 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 526222003008 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 526222003009 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 526222003010 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 526222003011 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 526222003012 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 526222003013 AMP-binding enzyme; Region: AMP-binding; cl15778 526222003014 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 526222003015 intersubunit interface [polypeptide binding]; other site 526222003016 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 526222003017 ABC-ATPase subunit interface; other site 526222003018 dimer interface [polypeptide binding]; other site 526222003019 putative PBP binding regions; other site 526222003020 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 526222003021 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 526222003022 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 526222003023 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 526222003024 intersubunit interface [polypeptide binding]; other site 526222003025 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 526222003026 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 526222003027 RNase E interface [polypeptide binding]; other site 526222003028 trimer interface [polypeptide binding]; other site 526222003029 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 526222003030 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 526222003031 RNase E interface [polypeptide binding]; other site 526222003032 trimer interface [polypeptide binding]; other site 526222003033 active site 526222003034 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 526222003035 putative nucleic acid binding region [nucleotide binding]; other site 526222003036 G-X-X-G motif; other site 526222003037 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 526222003038 RNA binding site [nucleotide binding]; other site 526222003039 domain interface; other site 526222003040 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 526222003041 16S/18S rRNA binding site [nucleotide binding]; other site 526222003042 S13e-L30e interaction site [polypeptide binding]; other site 526222003043 25S rRNA binding site [nucleotide binding]; other site 526222003044 tRNA pseudouridine synthase B; Provisional; Region: PRK14124 526222003045 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 526222003046 RNA binding site [nucleotide binding]; other site 526222003047 active site 526222003048 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 526222003049 DHH family; Region: DHH; pfam01368 526222003050 DHHA1 domain; Region: DHHA1; pfam02272 526222003051 Ribosome-binding factor A; Region: RBFA; cl00542 526222003052 Protein of unknown function (DUF503); Region: DUF503; cl00669 526222003053 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 526222003054 translation initiation factor IF-2; Region: IF-2; TIGR00487 526222003055 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 526222003056 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 526222003057 G1 box; other site 526222003058 putative GEF interaction site [polypeptide binding]; other site 526222003059 GTP/Mg2+ binding site [chemical binding]; other site 526222003060 Switch I region; other site 526222003061 G2 box; other site 526222003062 G3 box; other site 526222003063 Switch II region; other site 526222003064 G4 box; other site 526222003065 G5 box; other site 526222003066 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 526222003067 Translation-initiation factor 2; Region: IF-2; pfam11987 526222003068 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 526222003069 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 526222003070 NusA N-terminal domain; Region: NusA_N; pfam08529 526222003071 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 526222003072 RNA binding site [nucleotide binding]; other site 526222003073 homodimer interface [polypeptide binding]; other site 526222003074 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 526222003075 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 526222003076 G-X-X-G motif; other site 526222003077 ribosome maturation protein RimP; Reviewed; Region: PRK00092 526222003078 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 526222003079 Sm1 motif; other site 526222003080 D3 - B interaction site; other site 526222003081 D1 - D2 interaction site; other site 526222003082 Hfq - Hfq interaction site; other site 526222003083 RNA binding pocket [nucleotide binding]; other site 526222003084 Sm2 motif; other site 526222003085 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 526222003086 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 526222003087 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222003088 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 526222003089 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 526222003090 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222003091 SAF-like; Region: SAF_2; pfam13144 526222003092 SAF domain; Region: SAF; cl00555 526222003093 Flagellar L-ring protein; Region: FlgH; cl00905 526222003094 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 526222003095 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 526222003096 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 526222003097 Cache domain; Region: Cache_1; pfam02743 526222003098 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 526222003099 PAS domain; Region: PAS_9; pfam13426 526222003100 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222003101 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003102 dimer interface [polypeptide binding]; other site 526222003103 putative CheW interface [polypeptide binding]; other site 526222003104 Rod binding protein; Region: Rod-binding; cl01626 526222003105 FlgN protein; Region: FlgN; cl09176 526222003106 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 526222003107 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 526222003108 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222003109 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 526222003110 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222003111 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 526222003112 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222003113 Global regulator protein family; Region: CsrA; cl00670 526222003114 FliW protein; Region: FliW; cl00740 526222003115 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 526222003116 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 526222003117 Protein of unknown function DUF89; Region: DUF89; cl15397 526222003118 MltA specific insert domain; Region: MltA; cl08398 526222003119 3D domain; Region: 3D; cl01439 526222003120 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 526222003121 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 526222003122 GatB domain; Region: GatB_Yqey; cl11497 526222003123 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 526222003124 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 526222003125 GTP-binding protein Der; Reviewed; Region: PRK00093 526222003126 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 526222003127 G1 box; other site 526222003128 GTP/Mg2+ binding site [chemical binding]; other site 526222003129 Switch I region; other site 526222003130 G2 box; other site 526222003131 Switch II region; other site 526222003132 G3 box; other site 526222003133 G4 box; other site 526222003134 G5 box; other site 526222003135 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 526222003136 G1 box; other site 526222003137 GTP/Mg2+ binding site [chemical binding]; other site 526222003138 Switch I region; other site 526222003139 G2 box; other site 526222003140 G3 box; other site 526222003141 Switch II region; other site 526222003142 G4 box; other site 526222003143 G5 box; other site 526222003144 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 526222003145 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003146 active site 526222003147 phosphorylation site [posttranslational modification] 526222003148 intermolecular recognition site; other site 526222003149 dimerization interface [polypeptide binding]; other site 526222003150 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 526222003151 DNA binding residues [nucleotide binding] 526222003152 dimerization interface [polypeptide binding]; other site 526222003153 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 526222003154 META domain; Region: META; cl01245 526222003155 META domain; Region: META; cl01245 526222003156 Sulfatase; Region: Sulfatase; cl10460 526222003157 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 526222003158 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 526222003159 active site 526222003160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222003161 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 526222003162 active site 526222003163 metal-binding site 526222003164 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 526222003165 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 526222003166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222003167 homodimer interface [polypeptide binding]; other site 526222003168 catalytic residue [active] 526222003169 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 526222003170 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 526222003171 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 526222003172 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 526222003173 Colicin V production protein; Region: Colicin_V; cl00567 526222003174 Cupin domain; Region: Cupin_2; cl09118 526222003175 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222003176 heme-binding residues [chemical binding]; other site 526222003177 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 526222003178 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 526222003179 molybdopterin cofactor binding site; other site 526222003180 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 526222003181 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 526222003182 4Fe-4S binding domain; Region: Fer4; cl02805 526222003183 Polysulphide reductase, NrfD; Region: NrfD; cl01295 526222003184 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 526222003185 ligand binding site [chemical binding]; other site 526222003186 flexible hinge region; other site 526222003187 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 526222003188 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 526222003189 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 526222003190 anti sigma factor interaction site; other site 526222003191 regulatory phosphorylation site [posttranslational modification]; other site 526222003192 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 526222003193 active site residue [active] 526222003194 chromosome segregation protein; Provisional; Region: PRK01156 526222003195 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222003196 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 526222003197 Shikimate kinase; Region: SKI; pfam01202 526222003198 ADP binding site [chemical binding]; other site 526222003199 magnesium binding site [ion binding]; other site 526222003200 putative shikimate binding site; other site 526222003201 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 526222003202 Tetramer interface [polypeptide binding]; other site 526222003203 active site 526222003204 FMN-binding site [chemical binding]; other site 526222003205 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 526222003206 S-adenosylmethionine binding site [chemical binding]; other site 526222003207 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 526222003208 FeS/SAM binding site; other site 526222003209 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222003210 Domain of unknown function DUF77; Region: DUF77; cl00307 526222003211 ApbE family; Region: ApbE; cl00643 526222003212 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 526222003213 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 526222003214 Ribonuclease P; Region: Ribonuclease_P; cl00457 526222003215 Haemolytic domain; Region: Haemolytic; cl00506 526222003216 membrane protein insertase; Provisional; Region: PRK01318 526222003217 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 526222003218 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 526222003219 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 526222003220 G-X-X-G motif; other site 526222003221 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 526222003222 RxxxH motif; other site 526222003223 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 526222003224 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 526222003225 trmE is a tRNA modification GTPase; Region: trmE; cd04164 526222003226 G1 box; other site 526222003227 GTP/Mg2+ binding site [chemical binding]; other site 526222003228 Switch I region; other site 526222003229 G2 box; other site 526222003230 Switch II region; other site 526222003231 G3 box; other site 526222003232 G4 box; other site 526222003233 G5 box; other site 526222003234 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 526222003235 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 526222003236 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 526222003237 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 526222003238 Probable Catalytic site; other site 526222003239 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 526222003240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222003241 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 526222003242 S-adenosylmethionine binding site [chemical binding]; other site 526222003243 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 526222003244 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 526222003245 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 526222003246 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 526222003247 catalytic site [active] 526222003248 active site 526222003249 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 526222003250 putative acyl-acceptor binding pocket; other site 526222003251 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222003252 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 526222003253 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 526222003254 tetramer interface [polypeptide binding]; other site 526222003255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222003256 catalytic residue [active] 526222003257 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 526222003258 active site 526222003259 catalytic triad [active] 526222003260 oxyanion hole [active] 526222003261 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 526222003262 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 526222003263 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 526222003264 ABC-ATPase subunit interface; other site 526222003265 dimer interface [polypeptide binding]; other site 526222003266 putative PBP binding regions; other site 526222003267 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 526222003268 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 526222003269 active site 526222003270 dimer interface [polypeptide binding]; other site 526222003271 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 526222003272 Ligand Binding Site [chemical binding]; other site 526222003273 Molecular Tunnel; other site 526222003274 Cache domain; Region: Cache_1; pfam02743 526222003275 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 526222003276 PAS domain; Region: PAS_9; pfam13426 526222003277 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 526222003278 putative active site [active] 526222003279 heme pocket [chemical binding]; other site 526222003280 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003281 dimer interface [polypeptide binding]; other site 526222003282 putative CheW interface [polypeptide binding]; other site 526222003283 LysE type translocator; Region: LysE; cl00565 526222003284 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003286 active site 526222003287 phosphorylation site [posttranslational modification] 526222003288 intermolecular recognition site; other site 526222003289 dimerization interface [polypeptide binding]; other site 526222003290 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 526222003291 dimer interface [polypeptide binding]; other site 526222003292 active site 526222003293 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 526222003294 PAS domain S-box; Region: sensory_box; TIGR00229 526222003295 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 526222003296 putative active site [active] 526222003297 heme pocket [chemical binding]; other site 526222003298 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222003299 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 526222003300 dimer interface [polypeptide binding]; other site 526222003301 phosphorylation site [posttranslational modification] 526222003302 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 526222003303 ATP binding site [chemical binding]; other site 526222003304 Mg2+ binding site [ion binding]; other site 526222003305 G-X-G motif; other site 526222003306 flagellin; Provisional; Region: PRK12802 526222003307 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222003308 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222003309 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 526222003310 isocitrate dehydrogenase; Validated; Region: PRK07362 526222003311 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222003312 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 526222003313 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 526222003314 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222003315 Protein export membrane protein; Region: SecD_SecF; cl14618 526222003316 aspartate aminotransferase; Provisional; Region: PRK05764 526222003317 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 526222003318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222003319 homodimer interface [polypeptide binding]; other site 526222003320 catalytic residue [active] 526222003321 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 526222003322 Glutamine amidotransferase class-I; Region: GATase; pfam00117 526222003323 glutamine binding [chemical binding]; other site 526222003324 catalytic triad [active] 526222003325 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 526222003326 chorismate binding enzyme; Region: Chorismate_bind; cl10555 526222003327 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 526222003328 homodimer interface [polypeptide binding]; other site 526222003329 substrate-cofactor binding pocket; other site 526222003330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222003331 catalytic residue [active] 526222003332 Flagellar protein YcgR; Region: YcgR_2; pfam12945 526222003333 PilZ domain; Region: PilZ; cl01260 526222003334 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 526222003335 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 526222003336 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 526222003337 active site 526222003338 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 526222003339 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 526222003340 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 526222003341 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 526222003342 Ligand Binding Site [chemical binding]; other site 526222003343 TIGR00269 family protein; Region: TIGR00269 526222003344 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003345 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003346 active site 526222003347 phosphorylation site [posttranslational modification] 526222003348 intermolecular recognition site; other site 526222003349 dimerization interface [polypeptide binding]; other site 526222003350 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 526222003351 active site 526222003352 putative substrate binding region [chemical binding]; other site 526222003353 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 526222003354 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 526222003355 active site 526222003356 HIGH motif; other site 526222003357 dimer interface [polypeptide binding]; other site 526222003358 KMSKS motif; other site 526222003359 Predicted permease; Region: DUF318; pfam03773 526222003360 Predicted permease; Region: DUF318; pfam03773 526222003361 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 526222003362 dimerization interface [polypeptide binding]; other site 526222003363 putative DNA binding site [nucleotide binding]; other site 526222003364 putative Zn2+ binding site [ion binding]; other site 526222003365 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 526222003366 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 526222003367 dimerization interface [polypeptide binding]; other site 526222003368 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222003369 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 526222003370 putative active site [active] 526222003371 heme pocket [chemical binding]; other site 526222003372 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 526222003373 dimer interface [polypeptide binding]; other site 526222003374 phosphorylation site [posttranslational modification] 526222003375 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 526222003376 ATP binding site [chemical binding]; other site 526222003377 Mg2+ binding site [ion binding]; other site 526222003378 G-X-G motif; other site 526222003379 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003380 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003381 active site 526222003382 phosphorylation site [posttranslational modification] 526222003383 intermolecular recognition site; other site 526222003384 dimerization interface [polypeptide binding]; other site 526222003385 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 526222003386 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 526222003387 putative ligand binding site [chemical binding]; other site 526222003388 GAF domain; Region: GAF_2; pfam13185 526222003389 GAF domain; Region: GAF; cl15785 526222003390 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222003391 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222003392 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003394 active site 526222003395 phosphorylation site [posttranslational modification] 526222003396 intermolecular recognition site; other site 526222003397 dimerization interface [polypeptide binding]; other site 526222003398 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 526222003399 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 526222003400 putative ligand binding site [chemical binding]; other site 526222003401 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222003402 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 526222003403 putative active site [active] 526222003404 heme pocket [chemical binding]; other site 526222003405 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 526222003406 dimer interface [polypeptide binding]; other site 526222003407 phosphorylation site [posttranslational modification] 526222003408 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 526222003409 ATP binding site [chemical binding]; other site 526222003410 Mg2+ binding site [ion binding]; other site 526222003411 G-X-G motif; other site 526222003412 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003413 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003414 active site 526222003415 phosphorylation site [posttranslational modification] 526222003416 intermolecular recognition site; other site 526222003417 dimerization interface [polypeptide binding]; other site 526222003418 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 526222003419 anti sigma factor interaction site; other site 526222003420 regulatory phosphorylation site [posttranslational modification]; other site 526222003421 YceG-like family; Region: YceG; pfam02618 526222003422 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 526222003423 dimerization interface [polypeptide binding]; other site 526222003424 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 includes...; Region: RuvC_resolvase; cl00243 526222003425 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 526222003426 FAD binding domain; Region: FAD_binding_4; pfam01565 526222003427 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 526222003428 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222003429 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 526222003430 Cysteine-rich domain; Region: CCG; pfam02754 526222003431 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 526222003432 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 526222003433 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222003434 catalytic residue [active] 526222003435 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; cl15306 526222003436 substrate binding pocket [chemical binding]; other site 526222003437 membrane-bound complex binding site; other site 526222003438 hinge residues; other site 526222003439 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222003440 Helix-turn-helix domains; Region: HTH; cl00088 526222003441 Sulfate transporter family; Region: Sulfate_transp; cl15842 526222003442 Sulfate transporter family; Region: Sulfate_transp; cl15842 526222003443 Sulfate transporter family; Region: Sulfate_transp; cl15842 526222003444 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 526222003445 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 526222003446 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003447 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003448 active site 526222003449 phosphorylation site [posttranslational modification] 526222003450 intermolecular recognition site; other site 526222003451 dimerization interface [polypeptide binding]; other site 526222003452 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 526222003453 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 526222003454 dimer interface [polypeptide binding]; other site 526222003455 phosphorylation site [posttranslational modification] 526222003456 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 526222003457 ATP binding site [chemical binding]; other site 526222003458 Mg2+ binding site [ion binding]; other site 526222003459 G-X-G motif; other site 526222003460 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003462 active site 526222003463 phosphorylation site [posttranslational modification] 526222003464 intermolecular recognition site; other site 526222003465 dimerization interface [polypeptide binding]; other site 526222003466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222003467 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 526222003468 dimer interface [polypeptide binding]; other site 526222003469 phosphorylation site [posttranslational modification] 526222003470 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003472 active site 526222003473 phosphorylation site [posttranslational modification] 526222003474 intermolecular recognition site; other site 526222003475 dimerization interface [polypeptide binding]; other site 526222003476 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 526222003477 PAS fold; Region: PAS_4; pfam08448 526222003478 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222003479 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003480 dimer interface [polypeptide binding]; other site 526222003481 putative CheW interface [polypeptide binding]; other site 526222003482 Archaeal ATPase; Region: Arch_ATPase; pfam01637 526222003483 Acylphosphatase; Region: Acylphosphatase; cl00551 526222003484 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 526222003485 HypF finger; Region: zf-HYPF; pfam07503 526222003486 HypF finger; Region: zf-HYPF; pfam07503 526222003487 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 526222003488 Uncharacterized conserved protein [Function unknown]; Region: COG2006 526222003489 Domain of unknown function (DUF362); Region: DUF362; pfam04015 526222003490 adenylate kinase; Provisional; Region: PRK13808 526222003491 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 526222003492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222003493 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 526222003494 Walker A/P-loop; other site 526222003495 ATP binding site [chemical binding]; other site 526222003496 Q-loop/lid; other site 526222003497 ABC transporter signature motif; other site 526222003498 Walker B; other site 526222003499 D-loop; other site 526222003500 H-loop/switch region; other site 526222003501 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222003502 Walker A/P-loop; other site 526222003503 ATP binding site [chemical binding]; other site 526222003504 Q-loop/lid; other site 526222003505 ABC transporter signature motif; other site 526222003506 Walker B; other site 526222003507 D-loop; other site 526222003508 H-loop/switch region; other site 526222003509 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 cysteine...; Region: CysQ; cd01638 526222003510 active site 526222003511 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 526222003512 ATP binding site [chemical binding]; other site 526222003513 substrate interface [chemical binding]; other site 526222003514 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003516 active site 526222003517 phosphorylation site [posttranslational modification] 526222003518 intermolecular recognition site; other site 526222003519 dimerization interface [polypeptide binding]; other site 526222003520 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 526222003521 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222003522 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 526222003523 substrate binding pocket [chemical binding]; other site 526222003524 membrane-bound complex binding site; other site 526222003525 hinge residues; other site 526222003526 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 526222003527 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 526222003528 Walker A motif/ATP binding site; other site 526222003529 Walker B motif; other site 526222003530 Flagellar assembly protein FliH; Region: FliH; pfam02108 526222003531 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 526222003532 MgtE intracellular N domain; Region: MgtE_N; cl15244 526222003533 FliG C-terminal domain; Region: FliG_C; pfam01706 526222003534 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 526222003535 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 526222003536 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 526222003537 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 526222003538 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 526222003539 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222003540 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 526222003541 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 526222003542 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 526222003543 binding surface 526222003544 TPR motif; other site 526222003545 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 526222003546 binding surface 526222003547 TPR motif; other site 526222003548 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 526222003549 purine monophosphate binding site [chemical binding]; other site 526222003550 dimer interface [polypeptide binding]; other site 526222003551 putative catalytic residues [active] 526222003552 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 526222003553 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 526222003554 HflX GTPase family; Region: HflX; cd01878 526222003555 G1 box; other site 526222003556 GTP/Mg2+ binding site [chemical binding]; other site 526222003557 Switch I region; other site 526222003558 G2 box; other site 526222003559 G3 box; other site 526222003560 Switch II region; other site 526222003561 G4 box; other site 526222003562 G5 box; other site 526222003563 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 526222003564 rRNA binding site [nucleotide binding]; other site 526222003565 predicted 30S ribosome binding site; other site 526222003566 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 protein; Region: CSP_CDS; cd04458 526222003567 DNA-binding site [nucleotide binding]; DNA binding site 526222003568 RNA-binding motif; other site 526222003569 Lipid-A-disaccharide synthetase; Region: LpxB; pfam02684 526222003570 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 526222003571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003572 active site 526222003573 phosphorylation site [posttranslational modification] 526222003574 intermolecular recognition site; other site 526222003575 dimerization interface [polypeptide binding]; other site 526222003576 Response regulator receiver domain; Region: Response_reg; pfam00072 526222003577 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003578 active site 526222003579 phosphorylation site [posttranslational modification] 526222003580 intermolecular recognition site; other site 526222003581 dimerization interface [polypeptide binding]; other site 526222003582 Hydrogenase formation hypA family; Region: HypD; cl12072 526222003583 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 526222003584 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 526222003585 dimerization interface [polypeptide binding]; other site 526222003586 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 526222003587 ATP binding site [chemical binding]; other site 526222003588 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 526222003589 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 526222003590 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 526222003591 Cl- selectivity filter; other site 526222003592 Cl- binding residues [ion binding]; other site 526222003593 pore gating glutamate residue; other site 526222003594 dimer interface [polypeptide binding]; other site 526222003595 FOG: CBS domain [General function prediction only]; Region: COG0517 526222003596 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 526222003597 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 526222003598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222003599 active site 526222003600 phosphorylation site [posttranslational modification] 526222003601 intermolecular recognition site; other site 526222003602 dimerization interface [polypeptide binding]; other site 526222003603 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 526222003604 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 526222003605 FMN binding site [chemical binding]; other site 526222003606 active site 526222003607 catalytic residues [active] 526222003608 substrate binding site [chemical binding]; other site 526222003609 elongation factor Tu; Reviewed; Region: PRK00049 526222003610 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 526222003611 G1 box; other site 526222003612 GEF interaction site [polypeptide binding]; other site 526222003613 GTP/Mg2+ binding site [chemical binding]; other site 526222003614 Switch I region; other site 526222003615 G2 box; other site 526222003616 G3 box; other site 526222003617 Switch II region; other site 526222003618 G4 box; other site 526222003619 G5 box; other site 526222003620 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 526222003621 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 526222003622 Antibiotic Binding Site [chemical binding]; other site 526222003623 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 526222003624 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 526222003625 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 526222003626 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 526222003627 putative homodimer interface [polypeptide binding]; other site 526222003628 KOW motif; Region: KOW; cl00354 526222003629 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 526222003630 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 526222003631 23S rRNA interface [nucleotide binding]; other site 526222003632 L7/L12 interface [polypeptide binding]; other site 526222003633 putative thiostrepton binding site; other site 526222003634 L25 interface [polypeptide binding]; other site 526222003635 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 526222003636 mRNA/rRNA interface [nucleotide binding]; other site 526222003637 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 526222003638 23S rRNA interface [nucleotide binding]; other site 526222003639 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 526222003640 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 526222003641 core dimer interface [polypeptide binding]; other site 526222003642 peripheral dimer interface [polypeptide binding]; other site 526222003643 L10 interface [polypeptide binding]; other site 526222003644 L11 interface [polypeptide binding]; other site 526222003645 putative EF-Tu interaction site [polypeptide binding]; other site 526222003646 putative EF-G interaction site [polypeptide binding]; other site 526222003647 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; cl04593 526222003648 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 526222003649 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 526222003650 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 526222003651 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; cl04593 526222003652 RPB11 interaction site [polypeptide binding]; other site 526222003653 RPB12 interaction site [polypeptide binding]; other site 526222003654 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 526222003655 RPB3 interaction site [polypeptide binding]; other site 526222003656 RPB1 interaction site [polypeptide binding]; other site 526222003657 RPB11 interaction site [polypeptide binding]; other site 526222003658 RPB10 interaction site [polypeptide binding]; other site 526222003659 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 526222003660 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 526222003661 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 526222003662 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 526222003663 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 526222003664 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 526222003665 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 526222003666 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 526222003667 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 526222003668 DNA binding site [nucleotide binding] 526222003669 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 526222003670 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 526222003671 S17 interaction site [polypeptide binding]; other site 526222003672 S8 interaction site; other site 526222003673 16S rRNA interaction site [nucleotide binding]; other site 526222003674 streptomycin interaction site [chemical binding]; other site 526222003675 23S rRNA interaction site [nucleotide binding]; other site 526222003676 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 526222003677 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 526222003678 elongation factor G; Reviewed; Region: PRK00007 526222003679 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 526222003680 G1 box; other site 526222003681 putative GEF interaction site [polypeptide binding]; other site 526222003682 GTP/Mg2+ binding site [chemical binding]; other site 526222003683 Switch I region; other site 526222003684 G2 box; other site 526222003685 G3 box; other site 526222003686 Switch II region; other site 526222003687 G4 box; other site 526222003688 G5 box; other site 526222003689 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 526222003690 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 526222003691 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 526222003692 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 526222003693 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 526222003694 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 526222003695 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 526222003696 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 526222003697 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 526222003698 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 526222003699 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 526222003700 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 526222003701 putative translocon binding site; other site 526222003702 protein-rRNA interface [nucleotide binding]; other site 526222003703 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 526222003704 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 526222003705 G-X-X-G motif; other site 526222003706 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 526222003707 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 526222003708 23S rRNA interface [nucleotide binding]; other site 526222003709 5S rRNA interface [nucleotide binding]; other site 526222003710 putative antibiotic binding site [chemical binding]; other site 526222003711 L25 interface [polypeptide binding]; other site 526222003712 L27 interface [polypeptide binding]; other site 526222003713 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 526222003714 23S rRNA interface [nucleotide binding]; other site 526222003715 putative translocon interaction site; other site 526222003716 signal recognition particle (SRP54) interaction site; other site 526222003717 L23 interface [polypeptide binding]; other site 526222003718 trigger factor interaction site; other site 526222003719 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 526222003720 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 526222003721 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 526222003722 KOW motif; Region: KOW; cl00354 526222003723 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 526222003724 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 526222003725 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 526222003726 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 526222003727 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 526222003728 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 526222003729 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 526222003730 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 526222003731 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 526222003732 5S rRNA interface [nucleotide binding]; other site 526222003733 L27 interface [polypeptide binding]; other site 526222003734 23S rRNA interface [nucleotide binding]; other site 526222003735 L5 interface [polypeptide binding]; other site 526222003736 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 526222003737 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 526222003738 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 526222003739 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 526222003740 23S rRNA binding site [nucleotide binding]; other site 526222003741 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 526222003742 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 526222003743 SecY translocase; Region: SecY; pfam00344 526222003744 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 526222003745 active site 526222003746 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 526222003747 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 526222003748 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 526222003749 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 526222003750 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 526222003751 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 526222003752 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 526222003753 RNA binding surface [nucleotide binding]; other site 526222003754 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 526222003755 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 526222003756 alphaNTD - beta interaction site [polypeptide binding]; other site 526222003757 alphaNTD homodimer interface [polypeptide binding]; other site 526222003758 alphaNTD - beta' interaction site [polypeptide binding]; other site 526222003759 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 526222003760 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 526222003761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222003762 Helix-turn-helix domains; Region: HTH; cl00088 526222003763 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 526222003764 putative dimerization interface [polypeptide binding]; other site 526222003765 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 526222003766 NMT1-like family; Region: NMT1_2; cl15260 526222003767 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 526222003768 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 526222003769 FeS/SAM binding site; other site 526222003770 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 526222003771 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 526222003772 FeS/SAM binding site; other site 526222003773 NMT1-like family; Region: NMT1_2; cl15260 526222003774 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222003775 EamA-like transporter family; Region: EamA; cl01037 526222003776 EamA-like transporter family; Region: EamA; cl01037 526222003777 DNA polymerase II large subunit; Validated; Region: PRK04023 526222003778 Protein of unknown function (DUF615); Region: DUF615; cl01147 526222003779 EamA-like transporter family; Region: EamA; cl01037 526222003780 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222003781 EamA-like transporter family; Region: EamA; cl01037 526222003782 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 526222003783 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 526222003784 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 526222003785 putative DNA binding site [nucleotide binding]; other site 526222003786 putative Zn2+ binding site [ion binding]; other site 526222003787 Helix-turn-helix domains; Region: HTH; cl00088 526222003788 Proline dehydrogenase; Region: Pro_dh; cl03282 526222003789 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 526222003790 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 526222003791 Glutamate binding site [chemical binding]; other site 526222003792 homodimer interface [polypeptide binding]; other site 526222003793 NAD binding site [chemical binding]; other site 526222003794 catalytic residues [active] 526222003795 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 526222003796 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222003797 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003798 dimer interface [polypeptide binding]; other site 526222003799 putative CheW interface [polypeptide binding]; other site 526222003800 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 526222003801 anti sigma factor interaction site; other site 526222003802 regulatory phosphorylation site [posttranslational modification]; other site 526222003803 Permease; Region: Permease; cl00510 526222003804 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 526222003805 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 526222003806 Walker A/P-loop; other site 526222003807 ATP binding site [chemical binding]; other site 526222003808 Q-loop/lid; other site 526222003809 ABC transporter signature motif; other site 526222003810 Walker B; other site 526222003811 D-loop; other site 526222003812 H-loop/switch region; other site 526222003813 paraquat-inducible protein B; Provisional; Region: PRK10807 526222003814 mce related protein; Region: MCE; pfam02470 526222003815 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 526222003816 PAS domain; Region: PAS_9; pfam13426 526222003817 putative active site [active] 526222003818 heme pocket [chemical binding]; other site 526222003819 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222003820 metal binding site [ion binding]; metal-binding site 526222003821 active site 526222003822 I-site; other site 526222003823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 526222003824 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 526222003825 TPR motif; other site 526222003826 binding surface 526222003827 TPR repeat; Region: TPR_11; pfam13414 526222003828 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 526222003829 TPR motif; other site 526222003830 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222003831 binding surface 526222003832 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222003833 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 526222003834 ligand binding site [chemical binding]; other site 526222003835 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 526222003836 TPR motif; other site 526222003837 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 526222003838 TPR motif; other site 526222003839 binding surface 526222003840 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222003841 reticulocyte binding/rhoptry protein; Region: 235kDa-fam; TIGR01612 526222003842 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 526222003843 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; cl15306 526222003844 substrate binding pocket [chemical binding]; other site 526222003845 membrane-bound complex binding site; other site 526222003846 hinge residues; other site 526222003847 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 526222003848 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 526222003849 substrate binding site [chemical binding]; other site 526222003850 hexamer interface [polypeptide binding]; other site 526222003851 metal binding site [ion binding]; metal-binding site 526222003852 Helix-turn-helix domains; Region: HTH; cl00088 526222003853 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 526222003854 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 526222003855 FeS/SAM binding site; other site 526222003856 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222003857 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 526222003858 dimer interface [polypeptide binding]; other site 526222003859 active site 526222003860 Schiff base residues; other site 526222003861 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 526222003862 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 526222003863 FeS/SAM binding site; other site 526222003864 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222003865 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222003866 ligand binding site [chemical binding]; other site 526222003867 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 526222003868 Yip1 domain; Region: Yip1; cl12048 526222003869 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 526222003870 active site 526222003871 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 526222003872 Flagellar protein FliS; Region: FliS; cl00654 526222003873 flagellar capping protein; Provisional; Region: PRK12765 526222003874 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 526222003875 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 526222003876 flagellin; Provisional; Region: PRK12802 526222003877 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222003878 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222003879 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 526222003880 RIP metalloprotease RseP; Region: TIGR00054 526222003881 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 526222003882 active site 526222003883 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 526222003884 protein binding site [polypeptide binding]; other site 526222003885 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 526222003886 putative substrate binding region [chemical binding]; other site 526222003887 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 526222003888 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 526222003889 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 526222003890 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 526222003891 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 526222003892 GAF domain; Region: GAF_2; pfam13185 526222003893 GAF domain; Region: GAF; cl15785 526222003894 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222003895 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222003896 Bacterial SH3 domain; Region: SH3_3; cl02551 526222003897 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 526222003898 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 526222003899 catalytic residue [active] 526222003900 putative FPP diphosphate binding site; other site 526222003901 putative FPP binding hydrophobic cleft; other site 526222003902 dimer interface [polypeptide binding]; other site 526222003903 putative IPP diphosphate binding site; other site 526222003904 ribosome recycling factor; Reviewed; Region: frr; PRK00083 526222003905 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 round of...; Region: RRF; cd00520 526222003906 hinge region; other site 526222003907 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 526222003908 putative nucleotide binding site [chemical binding]; other site 526222003909 uridine monophosphate binding site [chemical binding]; other site 526222003910 homohexameric interface [polypeptide binding]; other site 526222003911 elongation factor Ts; Reviewed; Region: tsf; PRK12332 526222003912 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 526222003913 Elongation factor TS; Region: EF_TS; pfam00889 526222003914 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 526222003915 rRNA interaction site [nucleotide binding]; other site 526222003916 S8 interaction site; other site 526222003917 putative laminin-1 binding site; other site 526222003918 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 526222003919 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 526222003920 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222003921 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 526222003922 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 526222003923 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 526222003924 putative acyl-acceptor binding pocket; other site 526222003925 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 526222003926 octamerization interface [polypeptide binding]; other site 526222003927 diferric-oxygen binding site [ion binding]; other site 526222003928 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 526222003929 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 526222003930 dimer interface [polypeptide binding]; other site 526222003931 active site 526222003932 heme binding site [chemical binding]; other site 526222003933 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 526222003934 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 526222003935 elongation factor G; Reviewed; Region: PRK12740 526222003936 G1 box; other site 526222003937 putative GEF interaction site [polypeptide binding]; other site 526222003938 GTP/Mg2+ binding site [chemical binding]; other site 526222003939 Switch I region; other site 526222003940 G2 box; other site 526222003941 G3 box; other site 526222003942 Switch II region; other site 526222003943 G4 box; other site 526222003944 G5 box; other site 526222003945 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 526222003946 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 526222003947 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 526222003948 ParB-like nuclease domain; Region: ParBc; cl02129 526222003949 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222003950 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 526222003951 Short C-terminal domain; Region: SHOCT; cl01373 526222003952 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 526222003953 S-adenosylmethionine synthetase; Validated; Region: PRK05250 526222003954 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 526222003955 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 526222003956 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 526222003957 pantoate--beta-alanine ligase; Region: panC; TIGR00018 526222003958 Pantoate-beta-alanine ligase; Region: PanC; cd00560 526222003959 active site 526222003960 ATP-binding site [chemical binding]; other site 526222003961 pantoate-binding site; other site 526222003962 HXXH motif; other site 526222003963 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 526222003964 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 526222003965 putative DNA binding site [nucleotide binding]; other site 526222003966 putative Zn2+ binding site [ion binding]; other site 526222003967 Helix-turn-helix domains; Region: HTH; cl00088 526222003968 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 526222003969 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 526222003970 PAS fold; Region: PAS_4; pfam08448 526222003971 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003972 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222003973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222003974 dimer interface [polypeptide binding]; other site 526222003975 putative CheW interface [polypeptide binding]; other site 526222003976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222003977 metal binding site [ion binding]; metal-binding site 526222003978 active site 526222003979 I-site; other site 526222003980 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 526222003981 TPR motif; other site 526222003982 TPR repeat; Region: TPR_11; pfam13414 526222003983 binding surface 526222003984 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 526222003985 binding surface 526222003986 TPR motif; other site 526222003987 transcriptional regulator MalT; Provisional; Region: PRK04841 526222003988 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 catalyze...; Region: LT_GEWL; cd00254 526222003989 N-acetyl-D-glucosamine binding site [chemical binding]; other site 526222003990 catalytic residue [active] 526222003991 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 526222003992 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 526222003993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222003994 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 526222003995 binding surface 526222003996 TPR motif; other site 526222003997 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 526222003998 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 526222003999 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 526222004000 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 526222004001 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 526222004002 ATP binding site [chemical binding]; other site 526222004003 Mg2+ binding site [ion binding]; other site 526222004004 G-X-G motif; other site 526222004005 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 526222004006 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004007 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004008 active site 526222004009 phosphorylation site [posttranslational modification] 526222004010 intermolecular recognition site; other site 526222004011 dimerization interface [polypeptide binding]; other site 526222004012 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 526222004013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004014 active site 526222004015 phosphorylation site [posttranslational modification] 526222004016 intermolecular recognition site; other site 526222004017 dimerization interface [polypeptide binding]; other site 526222004018 CheB methylesterase; Region: CheB_methylest; pfam01339 526222004019 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004021 active site 526222004022 phosphorylation site [posttranslational modification] 526222004023 intermolecular recognition site; other site 526222004024 dimerization interface [polypeptide binding]; other site 526222004025 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 526222004026 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 526222004027 dimer interface [polypeptide binding]; other site 526222004028 phosphorylation site [posttranslational modification] 526222004029 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 526222004030 ATP binding site [chemical binding]; other site 526222004031 Mg2+ binding site [ion binding]; other site 526222004032 G-X-G motif; other site 526222004033 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004035 active site 526222004036 phosphorylation site [posttranslational modification] 526222004037 intermolecular recognition site; other site 526222004038 dimerization interface [polypeptide binding]; other site 526222004039 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 526222004040 phosphoglucomutase; Validated; Region: PRK07564 526222004041 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 526222004042 active site 526222004043 substrate binding site [chemical binding]; other site 526222004044 metal binding site [ion binding]; metal-binding site 526222004045 Protein of unknown function (DUF3795); Region: DUF3795; pfam12675 526222004046 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 526222004047 binding surface 526222004048 TPR motif; other site 526222004049 TPR repeat; Region: TPR_11; pfam13414 526222004050 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 526222004051 binding surface 526222004052 TPR motif; other site 526222004053 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222004054 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222004055 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 526222004056 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 526222004057 putative transporter; Provisional; Region: PRK11021 526222004058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222004059 Helix-turn-helix domains; Region: HTH; cl00088 526222004060 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 526222004061 dimerization interface [polypeptide binding]; other site 526222004062 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 526222004063 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 526222004064 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 526222004065 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 526222004066 dimer interface [polypeptide binding]; other site 526222004067 glycine-pyridoxal phosphate binding site [chemical binding]; other site 526222004068 active site 526222004069 folate binding site [chemical binding]; other site 526222004070 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 526222004071 active site 526222004072 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222004073 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 526222004074 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004075 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 526222004076 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 526222004077 substrate binding site [chemical binding]; other site 526222004078 glutamase interaction surface [polypeptide binding]; other site 526222004079 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 526222004080 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 526222004081 putative active site [active] 526222004082 oxyanion strand; other site 526222004083 catalytic triad [active] 526222004084 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 526222004085 chaperone protein DnaJ; Provisional; Region: PRK14291 526222004086 HSP70 interaction site [polypeptide binding]; other site 526222004087 Flagellin N-methylase; Region: FliB; cl00497 526222004088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222004089 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 526222004090 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 526222004091 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 526222004092 active site 526222004093 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 526222004094 dimer interface [polypeptide binding]; other site 526222004095 FMN binding site [chemical binding]; other site 526222004096 AMIN domain; Region: AMIN; pfam11741 526222004097 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 526222004098 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 526222004099 putative active site [active] 526222004100 metal binding site [ion binding]; metal-binding site 526222004101 AAA domain; Region: AAA_33; pfam13671 526222004102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222004103 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 526222004104 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 526222004105 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 526222004106 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 526222004107 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222004108 OpgC protein; Region: OpgC_C; cl00792 526222004109 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 526222004110 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 526222004111 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 526222004112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222004113 dimer interface [polypeptide binding]; other site 526222004114 conserved gate region; other site 526222004115 putative PBP binding loops; other site 526222004116 ABC-ATPase subunit interface; other site 526222004117 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222004118 dimer interface [polypeptide binding]; other site 526222004119 conserved gate region; other site 526222004120 putative PBP binding loops; other site 526222004121 ABC-ATPase subunit interface; other site 526222004122 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 526222004123 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 526222004124 Walker A/P-loop; other site 526222004125 ATP binding site [chemical binding]; other site 526222004126 Q-loop/lid; other site 526222004127 ABC transporter signature motif; other site 526222004128 Walker B; other site 526222004129 D-loop; other site 526222004130 H-loop/switch region; other site 526222004131 TOBE domain; Region: TOBE_2; cl01440 526222004132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222004133 Coenzyme A binding pocket [chemical binding]; other site 526222004134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 526222004135 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222004136 active site 526222004137 dimerization interface [polypeptide binding]; other site 526222004138 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 526222004139 ATP binding site [chemical binding]; other site 526222004140 Walker B motif; other site 526222004141 arginine finger; other site 526222004142 4Fe-4S binding domain; Region: Fer4; cl02805 526222004143 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 526222004144 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 526222004145 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 526222004146 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 526222004147 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 526222004148 FeS/SAM binding site; other site 526222004149 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 526222004150 aspartate ammonia-lyase; Provisional; Region: PRK13353 526222004151 Aspartase; Region: Aspartase; cd01357 526222004152 active sites [active] 526222004153 tetramer interface [polypeptide binding]; other site 526222004154 biotin synthase; Provisional; Region: PRK07094 526222004155 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 526222004156 FeS/SAM binding site; other site 526222004157 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 526222004158 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 526222004159 G1 box; other site 526222004160 GTP/Mg2+ binding site [chemical binding]; other site 526222004161 Switch I region; other site 526222004162 G2 box; other site 526222004163 Switch II region; other site 526222004164 G3 box; other site 526222004165 G4 box; other site 526222004166 G5 box; other site 526222004167 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222004168 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222004169 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222004170 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 526222004171 Helix-turn-helix domains; Region: HTH; cl00088 526222004172 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 526222004173 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 526222004174 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 526222004175 putative tRNA-binding site [nucleotide binding]; other site 526222004176 B3/4 domain; Region: B3_4; cl11458 526222004177 tRNA synthetase B5 domain; Region: B5; cl08394 526222004178 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 526222004179 dimer interface [polypeptide binding]; other site 526222004180 motif 1; other site 526222004181 motif 3; other site 526222004182 motif 2; other site 526222004183 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 526222004184 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 526222004185 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 526222004186 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 526222004187 dimer interface [polypeptide binding]; other site 526222004188 motif 1; other site 526222004189 active site 526222004190 motif 2; other site 526222004191 motif 3; other site 526222004192 ribosomal protein L20; Region: rpl20; CHL00068 526222004193 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 526222004194 23S rRNA binding site [nucleotide binding]; other site 526222004195 L21 binding site [polypeptide binding]; other site 526222004196 L13 binding site [polypeptide binding]; other site 526222004197 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 526222004198 translation initiation factor IF-3; Region: infC; TIGR00168 526222004199 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 526222004200 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 526222004201 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 526222004202 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 526222004203 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 526222004204 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 526222004205 active site 526222004206 dimer interface [polypeptide binding]; other site 526222004207 motif 1; other site 526222004208 motif 2; other site 526222004209 motif 3; other site 526222004210 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 526222004211 anticodon binding site; other site 526222004212 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 526222004213 Sulfatase; Region: Sulfatase; cl10460 526222004214 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 526222004215 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 526222004216 FeS/SAM binding site; other site 526222004217 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222004218 hypothetical protein; Provisional; Region: PRK05590 526222004219 SEC-C motif; Region: SEC-C; pfam02810 526222004220 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 526222004221 active site 526222004222 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 526222004223 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 526222004224 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 526222004225 Active site cavity [active] 526222004226 catalytic acid [active] 526222004227 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222004228 Helix-turn-helix domains; Region: HTH; cl00088 526222004229 WHG domain; Region: WHG; pfam13305 526222004230 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 526222004231 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 526222004232 putative active site [active] 526222004233 putative NTP binding site [chemical binding]; other site 526222004234 putative nucleic acid binding site [nucleotide binding]; other site 526222004235 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 526222004236 substrate binding pocket [chemical binding]; other site 526222004237 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004238 membrane-bound complex binding site; other site 526222004239 hinge residues; other site 526222004240 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 526222004241 Sulfatase; Region: Sulfatase; cl10460 526222004242 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 526222004243 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 526222004244 ligand binding site [chemical binding]; other site 526222004245 flexible hinge region; other site 526222004246 Helix-turn-helix domains; Region: HTH; cl00088 526222004247 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 526222004248 catalytic residues [active] 526222004249 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 526222004250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222004251 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222004252 CHASE4 domain; Region: CHASE4; cl01308 526222004253 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004254 metal binding site [ion binding]; metal-binding site 526222004255 active site 526222004256 I-site; other site 526222004257 Predicted membrane protein [Function unknown]; Region: COG2860 526222004258 UPF0126 domain; Region: UPF0126; pfam03458 526222004259 UPF0126 domain; Region: UPF0126; pfam03458 526222004260 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 526222004261 PAS fold; Region: PAS_4; pfam08448 526222004262 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 526222004263 putative active site [active] 526222004264 heme pocket [chemical binding]; other site 526222004265 PAS domain S-box; Region: sensory_box; TIGR00229 526222004266 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 526222004267 putative active site [active] 526222004268 heme pocket [chemical binding]; other site 526222004269 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 526222004270 dimer interface [polypeptide binding]; other site 526222004271 phosphorylation site [posttranslational modification] 526222004272 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 526222004273 ATP binding site [chemical binding]; other site 526222004274 Mg2+ binding site [ion binding]; other site 526222004275 G-X-G motif; other site 526222004276 Helix-turn-helix domains; Region: HTH; cl00088 526222004277 Rrf2 family protein; Region: rrf2_super; TIGR00738 526222004278 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004279 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004280 active site 526222004281 phosphorylation site [posttranslational modification] 526222004282 intermolecular recognition site; other site 526222004283 dimerization interface [polypeptide binding]; other site 526222004284 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 526222004285 sensory histidine kinase AtoS; Provisional; Region: PRK11360 526222004286 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 526222004287 ATP binding site [chemical binding]; other site 526222004288 Mg2+ binding site [ion binding]; other site 526222004289 G-X-G motif; other site 526222004290 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004292 active site 526222004293 phosphorylation site [posttranslational modification] 526222004294 intermolecular recognition site; other site 526222004295 dimerization interface [polypeptide binding]; other site 526222004296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004297 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004298 active site 526222004299 phosphorylation site [posttranslational modification] 526222004300 intermolecular recognition site; other site 526222004301 dimerization interface [polypeptide binding]; other site 526222004302 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 526222004303 Ligand Binding Site [chemical binding]; other site 526222004304 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 526222004305 Ligand Binding Site [chemical binding]; other site 526222004306 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222004307 Cysteine-rich domain; Region: CCG; pfam02754 526222004308 Polysulphide reductase, NrfD; Region: NrfD; cl01295 526222004309 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 526222004310 4Fe-4S binding domain; Region: Fer4; cl02805 526222004311 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004312 heme-binding residues [chemical binding]; other site 526222004313 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004314 heme-binding residues [chemical binding]; other site 526222004315 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004316 heme-binding residues [chemical binding]; other site 526222004317 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004318 heme-binding residues [chemical binding]; other site 526222004319 Protein of unknown function (DUF805); Region: DUF805; cl01224 526222004320 DNA recombination protein RmuC; Provisional; Region: PRK10361 526222004321 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 526222004322 RmuC family; Region: RmuC; pfam02646 526222004323 potential frameshift: common BLAST hit: gi|121612148|ref|YP_999752.1| cytochrome c family protein 526222004324 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 526222004325 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 526222004326 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 526222004327 heme-binding residues [chemical binding]; other site 526222004328 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 526222004329 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 526222004330 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222004331 heme-binding residues [chemical binding]; other site 526222004332 Transcriptional regulators [Transcription]; Region: GntR; COG1802 526222004333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222004334 DNA-binding site [nucleotide binding]; DNA binding site 526222004335 FCD domain; Region: FCD; cl11656 526222004336 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 526222004337 DctM-like transporters; Region: DctM; pfam06808 526222004338 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 526222004339 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 526222004340 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222004341 D-cysteine desulfhydrase; Validated; Region: PRK03910 526222004342 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 526222004343 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222004344 catalytic residue [active] 526222004345 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 526222004346 homotrimer interaction site [polypeptide binding]; other site 526222004347 putative active site [active] 526222004348 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 526222004349 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 526222004350 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 526222004351 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004352 substrate binding pocket [chemical binding]; other site 526222004353 membrane-bound complex binding site; other site 526222004354 hinge residues; other site 526222004355 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 526222004356 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 526222004357 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 526222004358 active site 526222004359 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 526222004360 homodimer interface [polypeptide binding]; other site 526222004361 substrate-cofactor binding pocket; other site 526222004362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222004363 catalytic residue [active] 526222004364 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222004365 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 526222004366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222004367 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222004368 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 526222004369 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222004370 putative substrate translocation pore; other site 526222004371 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222004372 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 526222004373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222004374 CoA-ligase; Region: Ligase_CoA; cl02894 526222004375 putative protease; Region: PHA00666 526222004376 major capsid protein; Region: PHA00665 526222004377 Endonuclease I; Region: Endonuclease_1; cl01003 526222004378 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 526222004379 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 526222004380 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 526222004381 ATP binding site [chemical binding]; other site 526222004382 putative Mg++ binding site [ion binding]; other site 526222004383 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 526222004384 cysteinyl-tRNA synthetase; Provisional; Region: cysS; PRK14535 526222004385 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222004386 AAA domain; Region: AAA_21; pfam13304 526222004387 Walker A/P-loop; other site 526222004388 ATP binding site [chemical binding]; other site 526222004389 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222004390 Walker B; other site 526222004391 D-loop; other site 526222004392 H-loop/switch region; other site 526222004393 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222004394 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 526222004395 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222004396 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 526222004397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222004398 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 526222004399 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 526222004400 non-specific DNA binding site [nucleotide binding]; other site 526222004401 salt bridge; other site 526222004402 sequence-specific DNA binding site [nucleotide binding]; other site 526222004403 multiple promoter invertase; Provisional; Region: mpi; PRK13413 526222004404 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 526222004405 catalytic residues [active] 526222004406 catalytic nucleophile [active] 526222004407 Presynaptic Site I dimer interface [polypeptide binding]; other site 526222004408 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 526222004409 Synaptic Flat tetramer interface [polypeptide binding]; other site 526222004410 Synaptic Site I dimer interface [polypeptide binding]; other site 526222004411 DNA binding site [nucleotide binding] 526222004412 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 526222004413 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 526222004414 DNA binding site [nucleotide binding] 526222004415 Int/Topo IB signature motif; other site 526222004416 active site 526222004417 catalytic residues [active] 526222004418 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 526222004419 non-specific DNA binding site [nucleotide binding]; other site 526222004420 salt bridge; other site 526222004421 sequence-specific DNA binding site [nucleotide binding]; other site 526222004422 major capsid protein; Region: PHA00665 526222004423 hypothetical protein; Region: PHA00664 526222004424 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 526222004425 Ligand Binding Site [chemical binding]; other site 526222004426 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 526222004427 Ligand Binding Site [chemical binding]; other site 526222004428 Phosphate-starvation-inducible E; Region: PsiE; cl01264 526222004429 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222004430 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 526222004431 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 526222004432 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 526222004433 dimer interface [polypeptide binding]; other site 526222004434 phosphorylation site [posttranslational modification] 526222004435 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 526222004436 ATP binding site [chemical binding]; other site 526222004437 Mg2+ binding site [ion binding]; other site 526222004438 G-X-G motif; other site 526222004439 hypothetical protein; Region: PHA00662 526222004440 hypothetical protein; Region: PHA00661 526222004441 hypothetical protein; Region: PHA00661 526222004442 hypothetical protein; Region: PHA00661 526222004443 hypothetical protein; Region: PHA01733 526222004444 hypothetical protein; Provisional; Region: PHA02515 526222004445 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 526222004446 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 526222004447 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 526222004448 substrate-cofactor binding pocket; other site 526222004449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222004450 catalytic residue [active] 526222004451 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 526222004452 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 526222004453 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 526222004454 S-adenosylmethionine binding site [chemical binding]; other site 526222004455 FOG: CBS domain [General function prediction only]; Region: COG0517 526222004456 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 526222004457 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 526222004458 seryl-tRNA synthetase; Provisional; Region: PRK05431 526222004459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004460 active site 526222004461 phosphorylation site [posttranslational modification] 526222004462 intermolecular recognition site; other site 526222004463 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 526222004464 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 526222004465 dimer interface [polypeptide binding]; other site 526222004466 phosphorylation site [posttranslational modification] 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 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 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 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 526222004477 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222004478 Zn2+ binding site [ion binding]; other site 526222004479 Mg2+ binding site [ion binding]; other site 526222004480 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 526222004481 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 526222004482 RNB domain; Region: RNB; pfam00773 526222004483 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 526222004484 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 526222004485 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 catalyze...; Region: LT_GEWL; cd00254 526222004486 N-acetyl-D-glucosamine binding site [chemical binding]; other site 526222004487 catalytic residue [active] 526222004488 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 526222004489 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 526222004490 GDP-binding site [chemical binding]; other site 526222004491 ACT binding site; other site 526222004492 IMP binding site; other site 526222004493 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 526222004494 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222004495 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222004496 Coenzyme A binding pocket [chemical binding]; other site 526222004497 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 526222004498 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 526222004499 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 526222004500 Active site serine [active] 526222004501 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; cl15306 526222004502 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004503 substrate binding pocket [chemical binding]; other site 526222004504 membrane-bound complex binding site; other site 526222004505 hinge residues; other site 526222004506 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 526222004507 active site 526222004508 substrate binding site [chemical binding]; other site 526222004509 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 526222004510 FMN binding site [chemical binding]; other site 526222004511 putative catalytic residues [active] 526222004512 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 526222004513 Transcriptional regulators [Transcription]; Region: FadR; COG2186 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 FCD domain; Region: FCD; cl11656 526222004517 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 526222004518 Iron-sulfur protein interface; other site 526222004519 proximal heme binding site [chemical binding]; other site 526222004520 distal heme binding site [chemical binding]; other site 526222004521 dimer interface [polypeptide binding]; other site 526222004522 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 526222004523 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 526222004524 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 526222004525 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 526222004526 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 526222004527 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 526222004528 hypothetical protein; Provisional; Region: PRK11568 526222004529 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 526222004530 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 526222004531 PAS fold; Region: PAS_4; pfam08448 526222004532 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 526222004533 putative active site [active] 526222004534 heme pocket [chemical binding]; other site 526222004535 GAF domain; Region: GAF_2; pfam13185 526222004536 GAF domain; Region: GAF; cl15785 526222004537 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 526222004538 dimer interface [polypeptide binding]; other site 526222004539 phosphorylation site [posttranslational modification] 526222004540 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 526222004541 ATP binding site [chemical binding]; other site 526222004542 Mg2+ binding site [ion binding]; other site 526222004543 G-X-G motif; other site 526222004544 Response regulator receiver domain; Region: Response_reg; pfam00072 526222004545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004546 active site 526222004547 phosphorylation site [posttranslational modification] 526222004548 intermolecular recognition site; other site 526222004549 dimerization interface [polypeptide binding]; other site 526222004550 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 526222004551 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 526222004552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222004553 homodimer interface [polypeptide binding]; other site 526222004554 catalytic residue [active] 526222004555 chromosome segregation protein; Provisional; Region: PRK02224 526222004556 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222004557 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222004558 dimer interface [polypeptide binding]; other site 526222004559 putative CheW interface [polypeptide binding]; other site 526222004560 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 526222004561 octamerization interface [polypeptide binding]; other site 526222004562 diferric-oxygen binding site [ion binding]; other site 526222004563 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222004564 Helix-turn-helix domains; Region: HTH; cl00088 526222004565 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 526222004566 substrate binding pocket [chemical binding]; other site 526222004567 dimerization interface [polypeptide binding]; other site 526222004568 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 526222004569 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004570 substrate binding pocket [chemical binding]; other site 526222004571 membrane-bound complex binding site; other site 526222004572 hinge residues; other site 526222004573 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 526222004574 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 526222004575 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 526222004576 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 526222004577 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 526222004578 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 526222004579 PAS domain; Region: PAS_9; pfam13426 526222004580 putative active site [active] 526222004581 heme pocket [chemical binding]; other site 526222004582 GAF domain; Region: GAF_2; pfam13185 526222004583 GAF domain; Region: GAF; cl15785 526222004584 PAS domain S-box; Region: sensory_box; TIGR00229 526222004585 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 526222004586 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 526222004587 PAS domain S-box; Region: sensory_box; TIGR00229 526222004588 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004589 metal binding site [ion binding]; metal-binding site 526222004590 active site 526222004591 I-site; other site 526222004592 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 526222004593 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 526222004594 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 526222004595 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 526222004596 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 526222004597 Cupin domain; Region: Cupin_2; cl09118 526222004598 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222004599 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222004600 Cupin domain; Region: Cupin_2; cl09118 526222004601 OsmC-like protein; Region: OsmC; cl00767 526222004602 Flagellin N-methylase; Region: FliB; cl00497 526222004603 GtrA-like protein; Region: GtrA; cl00971 526222004604 response regulator PleD; Reviewed; Region: pleD; PRK09581 526222004605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004606 active site 526222004607 phosphorylation site [posttranslational modification] 526222004608 intermolecular recognition site; other site 526222004609 dimerization interface [polypeptide binding]; other site 526222004610 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 526222004611 putative active site [active] 526222004612 heme pocket [chemical binding]; other site 526222004613 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004614 metal binding site [ion binding]; metal-binding site 526222004615 active site 526222004616 I-site; other site 526222004617 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 526222004618 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 526222004619 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 526222004620 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 526222004621 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 526222004622 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 526222004623 NADH dehydrogenase; Region: NADHdh; cl00469 526222004624 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 526222004625 4Fe-4S binding domain; Region: Fer4; cl02805 526222004626 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 526222004627 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 526222004628 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 526222004629 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 526222004630 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 526222004631 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 526222004632 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 526222004633 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 526222004634 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 526222004635 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 526222004636 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 526222004637 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 526222004638 ferrous iron transporter FeoB; Region: feoB; TIGR00437 526222004639 G1 box; other site 526222004640 GTP/Mg2+ binding site [chemical binding]; other site 526222004641 Switch I region; other site 526222004642 G2 box; other site 526222004643 G3 box; other site 526222004644 Switch II region; other site 526222004645 G4 box; other site 526222004646 G5 box; other site 526222004647 Nucleoside recognition; Region: Gate; cl00486 526222004648 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 526222004649 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 526222004650 FeoA domain; Region: FeoA; cl00838 526222004651 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 526222004652 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 526222004653 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 526222004654 trimer interface [polypeptide binding]; other site 526222004655 CoA binding site [chemical binding]; other site 526222004656 active site 526222004657 Sodium:solute symporter family; Region: SSF; cl00456 526222004658 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 526222004659 glutamate dehydrogenase; Provisional; Region: PRK09414 526222004660 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 526222004661 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 526222004662 NAD(P) binding site [chemical binding]; other site 526222004663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222004664 intermolecular recognition site; other site 526222004665 active site 526222004666 dimerization interface [polypeptide binding]; other site 526222004667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 526222004668 phosphorylation site [posttranslational modification] 526222004669 intermolecular recognition site; other site 526222004670 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222004671 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 526222004672 anti sigma factor interaction site; other site 526222004673 regulatory phosphorylation site [posttranslational modification]; other site 526222004674 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 526222004675 anti sigma factor interaction site; other site 526222004676 regulatory phosphorylation site [posttranslational modification]; other site 526222004677 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 526222004678 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222004679 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 526222004680 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 526222004681 DAK2 domain; Region: Dak2; cl03685 526222004682 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 526222004683 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222004684 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 526222004685 Walker A/P-loop; other site 526222004686 ATP binding site [chemical binding]; other site 526222004687 Q-loop/lid; other site 526222004688 ABC transporter signature motif; other site 526222004689 Walker B; other site 526222004690 D-loop; other site 526222004691 H-loop/switch region; other site 526222004692 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222004693 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 526222004694 substrate binding pocket [chemical binding]; other site 526222004695 membrane-bound complex binding site; other site 526222004696 hinge residues; other site 526222004697 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222004698 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222004699 dimer interface [polypeptide binding]; other site 526222004700 conserved gate region; other site 526222004701 putative PBP binding loops; other site 526222004702 ABC-ATPase subunit interface; other site 526222004703 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222004704 dimer interface [polypeptide binding]; other site 526222004705 conserved gate region; other site 526222004706 putative PBP binding loops; other site 526222004707 ABC-ATPase subunit interface; other site 526222004708 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 526222004709 intersubunit interface [polypeptide binding]; other site 526222004710 active site 526222004711 catalytic residue [active] 526222004712 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 526222004713 Precorrin-8X methylmutase; Region: CbiC; pfam02570 526222004714 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 526222004715 PAS domain S-box; Region: sensory_box; TIGR00229 526222004716 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 526222004717 PAS domain S-box; Region: sensory_box; TIGR00229 526222004718 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 526222004719 putative active site [active] 526222004720 heme pocket [chemical binding]; other site 526222004721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004722 metal binding site [ion binding]; metal-binding site 526222004723 active site 526222004724 I-site; other site 526222004725 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 526222004726 Ferredoxin [Energy production and conversion]; Region: COG1146 526222004727 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222004728 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 526222004729 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 526222004730 dimer interface [polypeptide binding]; other site 526222004731 PYR/PP interface [polypeptide binding]; other site 526222004732 TPP binding site [chemical binding]; other site 526222004733 substrate binding site [chemical binding]; other site 526222004734 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 526222004735 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 526222004736 TPP-binding site [chemical binding]; other site 526222004737 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 526222004738 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 526222004739 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 526222004740 GAF domain; Region: GAF; cl15785 526222004741 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 526222004742 Walker A motif; other site 526222004743 ATP binding site [chemical binding]; other site 526222004744 Walker B motif; other site 526222004745 arginine finger; other site 526222004746 Helix-turn-helix domains; Region: HTH; cl00088 526222004747 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 526222004748 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 526222004749 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 526222004750 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 526222004751 dimer interface [polypeptide binding]; other site 526222004752 PYR/PP interface [polypeptide binding]; other site 526222004753 TPP binding site [chemical binding]; other site 526222004754 substrate binding site [chemical binding]; other site 526222004755 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 526222004756 TPP-binding site; other site 526222004757 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 526222004758 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 526222004759 putative catalytic cysteine [active] 526222004760 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 526222004761 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 526222004762 active site 526222004763 (T/H)XGH motif; other site 526222004764 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 526222004765 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222004766 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 526222004767 putative active site [active] 526222004768 Domain of unknown function DUF21; Region: DUF21; pfam01595 526222004769 FOG: CBS domain [General function prediction only]; Region: COG0517 526222004770 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 526222004771 CcmE; Region: CcmE; cl00994 526222004772 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 526222004773 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 526222004774 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222004775 Walker A/P-loop; other site 526222004776 ATP binding site [chemical binding]; other site 526222004777 Q-loop/lid; other site 526222004778 ABC transporter signature motif; other site 526222004779 Walker B; other site 526222004780 D-loop; other site 526222004781 H-loop/switch region; other site 526222004782 CcmB protein; Region: CcmB; cl01016 526222004783 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 526222004784 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 526222004785 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 526222004786 binding surface 526222004787 TPR motif; other site 526222004788 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 526222004789 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 526222004790 dimerization interface [polypeptide binding]; other site 526222004791 ligand binding site [chemical binding]; other site 526222004792 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 526222004793 TM-ABC transporter signature motif; other site 526222004794 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 526222004795 TM-ABC transporter signature motif; other site 526222004796 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 526222004797 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 526222004798 Walker A/P-loop; other site 526222004799 ATP binding site [chemical binding]; other site 526222004800 Q-loop/lid; other site 526222004801 ABC transporter signature motif; other site 526222004802 Walker B; other site 526222004803 D-loop; other site 526222004804 H-loop/switch region; other site 526222004805 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 526222004806 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 526222004807 Walker A/P-loop; other site 526222004808 ATP binding site [chemical binding]; other site 526222004809 Q-loop/lid; other site 526222004810 ABC transporter signature motif; other site 526222004811 Walker B; other site 526222004812 D-loop; other site 526222004813 H-loop/switch region; other site 526222004814 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 526222004815 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; cl09108 526222004816 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 key...; Region: CBS_pair_IMPDH; cd04601 526222004817 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 the guanine...; Region: IMPDH; cd00381 526222004818 active site 526222004819 GMP synthase; Reviewed; Region: guaA; PRK00074 526222004820 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 526222004821 AMP/PPi binding site [chemical binding]; other site 526222004822 candidate oxyanion hole; other site 526222004823 catalytic triad [active] 526222004824 potential glutamine specificity residues [chemical binding]; other site 526222004825 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 526222004826 ATP Binding subdomain [chemical binding]; other site 526222004827 Ligand Binding sites [chemical binding]; other site 526222004828 Dimerization subdomain; other site 526222004829 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 526222004830 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 526222004831 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 526222004832 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 526222004833 putative active site pocket [active] 526222004834 4-fold oligomerization interface [polypeptide binding]; other site 526222004835 metal binding residues [ion binding]; metal-binding site 526222004836 3-fold/trimer interface [polypeptide binding]; other site 526222004837 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 526222004838 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 526222004839 catalytic residues [active] 526222004840 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 526222004841 metal-binding site [ion binding] 526222004842 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 526222004843 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 526222004844 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222004845 catalytic residue [active] 526222004846 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222004847 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222004848 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 526222004849 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 526222004850 RNA/DNA binding site [nucleotide binding]; other site 526222004851 RRM dimerization site [polypeptide binding]; other site 526222004852 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 526222004853 Amidase; Region: Amidase; cl11426 526222004854 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 526222004855 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222004856 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 526222004857 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 526222004858 dimer interface [polypeptide binding]; other site 526222004859 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 526222004860 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 526222004861 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 526222004862 FeoA domain; Region: FeoA; cl00838 526222004863 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 526222004864 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 526222004865 G1 box; other site 526222004866 GTP/Mg2+ binding site [chemical binding]; other site 526222004867 Switch I region; other site 526222004868 G2 box; other site 526222004869 G3 box; other site 526222004870 Switch II region; other site 526222004871 G4 box; other site 526222004872 G5 box; other site 526222004873 Nucleoside recognition; Region: Gate; cl00486 526222004874 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 526222004875 Nucleoside recognition; Region: Gate; cl00486 526222004876 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 526222004877 Clp amino terminal domain; Region: Clp_N; pfam02861 526222004878 Clp amino terminal domain; Region: Clp_N; pfam02861 526222004879 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 526222004880 Walker A motif; other site 526222004881 ATP binding site [chemical binding]; other site 526222004882 Walker B motif; other site 526222004883 arginine finger; other site 526222004884 Calmodulin-binding; Region: Enkurin; pfam13864 526222004885 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 526222004886 Walker A motif; other site 526222004887 ATP binding site [chemical binding]; other site 526222004888 Walker B motif; other site 526222004889 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 526222004890 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 526222004891 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 526222004892 HSP70 interaction site [polypeptide binding]; other site 526222004893 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 526222004894 substrate binding site [polypeptide binding]; other site 526222004895 dimer interface [polypeptide binding]; other site 526222004896 Rhomboid family; Region: Rhomboid; cl11446 526222004897 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 526222004898 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 526222004899 RNA binding surface [nucleotide binding]; other site 526222004900 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 526222004901 active site 526222004902 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 526222004903 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 526222004904 CoA-binding site [chemical binding]; other site 526222004905 ATP-binding [chemical binding]; other site 526222004906 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222004907 active site 526222004908 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 526222004909 uracil-xanthine permease; Region: ncs2; TIGR00801 526222004910 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 526222004911 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 526222004912 Ligand Binding Site [chemical binding]; other site 526222004913 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 526222004914 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222004915 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 526222004916 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 526222004917 2-isopropylmalate synthase; Validated; Region: PRK00915 526222004918 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 526222004919 active site 526222004920 catalytic residues [active] 526222004921 metal binding site [ion binding]; metal-binding site 526222004922 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 526222004923 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 526222004924 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 526222004925 substrate binding site [chemical binding]; other site 526222004926 ligand binding site [chemical binding]; other site 526222004927 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 526222004928 substrate binding site [chemical binding]; other site 526222004929 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 526222004930 tartrate dehydrogenase; Provisional; Region: PRK08194 526222004931 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 526222004932 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222004933 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 526222004934 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 526222004935 dihydrodipicolinate synthase; Region: dapA; TIGR00674 526222004936 dimer interface [polypeptide binding]; other site 526222004937 active site 526222004938 catalytic residue [active] 526222004939 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 526222004940 IHF - DNA interface [nucleotide binding]; other site 526222004941 IHF dimer interface [polypeptide binding]; other site 526222004942 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 526222004943 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222004944 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 526222004945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222004946 metal binding site [ion binding]; metal-binding site 526222004947 active site 526222004948 I-site; other site 526222004949 peptide chain release factor 2; Validated; Region: prfB; PRK00578 526222004950 RF-1 domain; Region: RF-1; cl02875 526222004951 RF-1 domain; Region: RF-1; cl02875 526222004952 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 526222004953 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 526222004954 putative active site [active] 526222004955 catalytic triad [active] 526222004956 putative dimer interface [polypeptide binding]; other site 526222004957 FOG: CBS domain [General function prediction only]; Region: COG0517 526222004958 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 526222004959 Transporter associated domain; Region: CorC_HlyC; cl08393 526222004960 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 526222004961 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 526222004962 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222004963 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 526222004964 diaminopimelate aminotransferase; Provisional; Region: PRK13983 526222004965 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 526222004966 metal binding site [ion binding]; metal-binding site 526222004967 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 526222004968 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 526222004969 active site 526222004970 putative substrate binding pocket [chemical binding]; other site 526222004971 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 526222004972 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222004973 active site 526222004974 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 526222004975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222004976 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 526222004977 IHF dimer interface [polypeptide binding]; other site 526222004978 IHF - DNA interface [nucleotide binding]; other site 526222004979 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 526222004980 GatB domain; Region: GatB_Yqey; cl11497 526222004981 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 526222004982 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222004983 Walker A/P-loop; other site 526222004984 ATP binding site [chemical binding]; other site 526222004985 Q-loop/lid; other site 526222004986 ABC transporter signature motif; other site 526222004987 Walker B; other site 526222004988 D-loop; other site 526222004989 H-loop/switch region; other site 526222004990 Smr domain; Region: Smr; cl02619 526222004991 DNA primase; Validated; Region: dnaG; PRK05667 526222004992 CHC2 zinc finger; Region: zf-CHC2; cl15369 526222004993 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 526222004994 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 526222004995 active site 526222004996 metal binding site [ion binding]; metal-binding site 526222004997 interdomain interaction site; other site 526222004998 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 526222004999 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 526222005000 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 526222005001 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222005002 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 526222005003 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 526222005004 DNA binding residues [nucleotide binding] 526222005005 CobD/Cbib protein; Region: CobD_Cbib; cl00561 526222005006 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 526222005007 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 526222005008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005009 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 526222005010 active site 526222005011 multimer interface [polypeptide binding]; other site 526222005012 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 526222005013 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005014 Walker A/P-loop; other site 526222005015 ATP binding site [chemical binding]; other site 526222005016 Q-loop/lid; other site 526222005017 ABC transporter signature motif; other site 526222005018 Walker B; other site 526222005019 D-loop; other site 526222005020 H-loop/switch region; other site 526222005021 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 526222005022 TM-ABC transporter signature motif; other site 526222005023 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 526222005024 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 526222005025 zinc binding site [ion binding]; other site 526222005026 putative ligand binding site [chemical binding]; other site 526222005027 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 526222005028 NodB motif; other site 526222005029 putative active site [active] 526222005030 putative catalytic site [active] 526222005031 Zn binding site [ion binding]; other site 526222005032 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 526222005033 C-terminal peptidase (prc); Region: prc; TIGR00225 526222005034 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 526222005035 protein binding site [polypeptide binding]; other site 526222005036 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 526222005037 Catalytic dyad [active] 526222005038 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 526222005039 Peptidase family M23; Region: Peptidase_M23; pfam01551 526222005040 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 526222005041 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 526222005042 minor groove reading motif; other site 526222005043 helix-hairpin-helix signature motif; other site 526222005044 substrate binding pocket [chemical binding]; other site 526222005045 active site 526222005046 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 526222005047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005048 acetylornithine aminotransferase; Provisional; Region: PRK02627 526222005049 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 526222005050 inhibitor-cofactor binding pocket; inhibition site 526222005051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222005052 catalytic residue [active] 526222005053 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 526222005054 trimer interface [polypeptide binding]; other site 526222005055 active site 526222005056 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 526222005057 putative homodimer interface [polypeptide binding]; other site 526222005058 putative active site pocket [active] 526222005059 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 526222005060 Staphylococcal nuclease homologues; Region: SNc; smart00318 526222005061 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 526222005062 Catalytic site; other site 526222005063 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 526222005064 4Fe-4S binding domain; Region: Fer4; cl02805 526222005065 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 526222005066 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 526222005067 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 526222005068 active site 526222005069 FMN binding site [chemical binding]; other site 526222005070 substrate binding site [chemical binding]; other site 526222005071 3Fe-4S cluster binding site [ion binding]; other site 526222005072 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 526222005073 4Fe-4S binding domain; Region: Fer4; cl02805 526222005074 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 526222005075 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222005076 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 526222005077 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 526222005078 putative active site [active] 526222005079 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 526222005080 putative subunit interface; other site 526222005081 Preprotein translocase subunit; Region: YajC; cl00806 526222005082 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 526222005083 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 526222005084 Protein export membrane protein; Region: SecD_SecF; cl14618 526222005085 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 526222005086 Protein export membrane protein; Region: SecD_SecF; cl14618 526222005087 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 526222005088 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 526222005089 aromatic amino acid transport protein; Region: araaP; TIGR00837 526222005090 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 526222005091 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 526222005092 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 526222005093 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 526222005094 Ligand Binding Site [chemical binding]; other site 526222005095 4Fe-4S binding domain; Region: Fer4_5; pfam12801 526222005096 4Fe-4S binding domain; Region: Fer4_5; pfam12801 526222005097 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 526222005098 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 526222005099 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 526222005100 NADP binding site [chemical binding]; other site 526222005101 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 526222005102 active site 526222005103 putative substrate binding site [chemical binding]; other site 526222005104 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 526222005105 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 526222005106 NAD binding site [chemical binding]; other site 526222005107 substrate binding site [chemical binding]; other site 526222005108 homodimer interface [polypeptide binding]; other site 526222005109 active site 526222005110 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 526222005111 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 526222005112 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 526222005113 DNA binding site [nucleotide binding] 526222005114 Int/Topo IB signature motif; other site 526222005115 active site 526222005116 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 526222005117 Restriction endonuclease; Region: Mrr_cat; cl00516 526222005118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005119 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 526222005120 Walker A/P-loop; other site 526222005121 ATP binding site [chemical binding]; other site 526222005122 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 526222005123 ATP binding site [chemical binding]; other site 526222005124 Q-loop/lid; other site 526222005125 ABC transporter signature motif; other site 526222005126 Walker B; other site 526222005127 D-loop; other site 526222005128 H-loop/switch region; other site 526222005129 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 526222005130 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 526222005131 S-adenosylmethionine binding site [chemical binding]; other site 526222005132 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005133 Family description; Region: UvrD_C_2; cl15862 526222005134 Protein of unknown function DUF45; Region: DUF45; cl00636 526222005135 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 526222005136 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 526222005137 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 526222005138 ATP binding site [chemical binding]; other site 526222005139 putative Mg++ binding site [ion binding]; other site 526222005140 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 526222005141 GIY-YIG motif/motif A; other site 526222005142 putative active site [active] 526222005143 putative metal binding site [ion binding]; other site 526222005144 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 526222005145 cyclase homology domain; Region: CHD; cd07302 526222005146 nucleotidyl binding site; other site 526222005147 metal binding site [ion binding]; metal-binding site 526222005148 dimer interface [polypeptide binding]; other site 526222005149 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222005150 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 526222005151 HsdM N-terminal domain; Region: HsdM_N; pfam12161 526222005152 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 526222005153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005154 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 526222005155 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 526222005156 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 526222005157 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 526222005158 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 526222005159 Walker A motif; other site 526222005160 ATP binding site [chemical binding]; other site 526222005161 Walker B motif; other site 526222005162 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222005163 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 526222005164 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 526222005165 DNA binding site [nucleotide binding] 526222005166 Int/Topo IB signature motif; other site 526222005167 active site 526222005168 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 526222005169 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 526222005170 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222005171 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 526222005172 GAF domain; Region: GAF; cl15785 526222005173 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222005174 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 526222005175 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 526222005176 active site 526222005177 putative substrate binding region [chemical binding]; other site 526222005178 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 526222005179 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 526222005180 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 526222005181 non-specific DNA binding site [nucleotide binding]; other site 526222005182 salt bridge; other site 526222005183 sequence-specific DNA binding site [nucleotide binding]; other site 526222005184 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 526222005185 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 526222005186 Protein of unknown function, DUF462; Region: DUF462; cl01190 526222005187 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 526222005188 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 526222005189 active site 526222005190 metal binding site [ion binding]; metal-binding site 526222005191 interdomain interaction site; other site 526222005192 DNA topoisomerase III; Provisional; Region: PRK07726 526222005193 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 526222005194 active site 526222005195 interdomain interaction site; other site 526222005196 putative metal-binding site [ion binding]; other site 526222005197 nucleotide binding site [chemical binding]; other site 526222005198 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 526222005199 domain I; other site 526222005200 DNA binding groove [nucleotide binding] 526222005201 phosphate binding site [ion binding]; other site 526222005202 domain II; other site 526222005203 domain III; other site 526222005204 nucleotide binding site [chemical binding]; other site 526222005205 catalytic site [active] 526222005206 domain IV; other site 526222005207 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222005208 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222005209 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 526222005210 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 526222005211 chaperone protein DnaJ; Provisional; Region: PRK10767 526222005212 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 526222005213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005214 Walker A motif; other site 526222005215 ATP binding site [chemical binding]; other site 526222005216 Walker B motif; other site 526222005217 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 526222005218 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 526222005219 Phage Tail Collar Domain; Region: Collar; pfam07484 526222005220 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 526222005221 PilM; Region: PilM; pfam07419 526222005222 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005223 Walker A motif; other site 526222005224 ATP binding site [chemical binding]; other site 526222005225 Walker B motif; other site 526222005226 PilS N terminal; Region: PilS; pfam08805 526222005227 PilS N terminal; Region: PilS; pfam08805 526222005228 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 526222005229 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 526222005230 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005231 Walker A motif; other site 526222005232 ATP binding site [chemical binding]; other site 526222005233 Walker B motif; other site 526222005234 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 526222005235 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 526222005236 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 526222005237 conjugal transfer protein TrbH; Provisional; Region: PRK13883 526222005238 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 526222005239 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 526222005240 VirB7 interaction site; other site 526222005241 VirB8 protein; Region: VirB8; cl01500 526222005242 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 526222005243 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 526222005244 conjugal transfer protein TrbE; Provisional; Region: PRK13891 526222005245 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 526222005246 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005247 Walker A motif; other site 526222005248 ATP binding site [chemical binding]; other site 526222005249 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 526222005250 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 526222005251 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 526222005252 ATP binding site [chemical binding]; other site 526222005253 Walker A motif; other site 526222005254 hexamer interface [polypeptide binding]; other site 526222005255 Walker B motif; other site 526222005256 Transcriptional activator TraM; Region: Activator-TraM; cl11943 526222005257 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 526222005258 P-loop; other site 526222005259 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 526222005260 homotrimer interaction site [polypeptide binding]; other site 526222005261 putative active site [active] 526222005262 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 526222005263 anti sigma factor interaction site; other site 526222005264 regulatory phosphorylation site [posttranslational modification]; other site 526222005265 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005267 active site 526222005268 phosphorylation site [posttranslational modification] 526222005269 intermolecular recognition site; other site 526222005270 dimerization interface [polypeptide binding]; other site 526222005271 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 526222005272 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 526222005273 Histidine kinase; Region: HisKA_2; cl06527 526222005274 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 526222005275 ATP binding site [chemical binding]; other site 526222005276 Mg2+ binding site [ion binding]; other site 526222005277 G-X-G motif; other site 526222005278 PilZ domain; Region: PilZ; cl01260 526222005279 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222005280 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 526222005281 Walker A/P-loop; other site 526222005282 ATP binding site [chemical binding]; other site 526222005283 Q-loop/lid; other site 526222005284 ABC transporter signature motif; other site 526222005285 Walker B; other site 526222005286 D-loop; other site 526222005287 H-loop/switch region; other site 526222005288 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 526222005289 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222005290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222005291 dimer interface [polypeptide binding]; other site 526222005292 conserved gate region; other site 526222005293 putative PBP binding loops; other site 526222005294 ABC-ATPase subunit interface; other site 526222005295 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 526222005296 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222005297 substrate binding pocket [chemical binding]; other site 526222005298 membrane-bound complex binding site; other site 526222005299 hinge residues; other site 526222005300 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222005301 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 526222005302 substrate binding pocket [chemical binding]; other site 526222005303 membrane-bound complex binding site; other site 526222005304 hinge residues; other site 526222005305 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222005306 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222005307 dimer interface [polypeptide binding]; other site 526222005308 conserved gate region; other site 526222005309 putative PBP binding loops; other site 526222005310 ABC-ATPase subunit interface; other site 526222005311 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222005312 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 526222005313 Walker A/P-loop; other site 526222005314 ATP binding site [chemical binding]; other site 526222005315 Q-loop/lid; other site 526222005316 ABC transporter signature motif; other site 526222005317 Walker B; other site 526222005318 D-loop; other site 526222005319 H-loop/switch region; other site 526222005320 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222005321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005322 active site 526222005323 phosphorylation site [posttranslational modification] 526222005324 intermolecular recognition site; other site 526222005325 dimerization interface [polypeptide binding]; other site 526222005326 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 526222005327 dimer interface [polypeptide binding]; other site 526222005328 phosphorylation site [posttranslational modification] 526222005329 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 526222005330 ATP binding site [chemical binding]; other site 526222005331 Mg2+ binding site [ion binding]; other site 526222005332 G-X-G motif; other site 526222005333 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005334 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005335 active site 526222005336 phosphorylation site [posttranslational modification] 526222005337 intermolecular recognition site; other site 526222005338 dimerization interface [polypeptide binding]; other site 526222005339 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 526222005340 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 526222005341 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 526222005342 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 526222005343 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 526222005344 active site 526222005345 metal binding site [ion binding]; metal-binding site 526222005346 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 526222005347 MltA specific insert domain; Region: MltA; cl08398 526222005348 3D domain; Region: 3D; cl01439 526222005349 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222005350 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 526222005351 MAEBL; Provisional; Region: PTZ00121 526222005352 Predicted deacylase [General function prediction only]; Region: COG3608 526222005353 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 526222005354 putative active site [active] 526222005355 Zn binding site [ion binding]; other site 526222005356 ferredoxin; Validated; Region: PRK07118 526222005357 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 526222005358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005359 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 526222005360 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 526222005361 FMN-binding domain; Region: FMN_bind; cl01081 526222005362 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 526222005363 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 526222005364 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 526222005365 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222005366 heme-binding residues [chemical binding]; other site 526222005367 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222005368 heme-binding residues [chemical binding]; other site 526222005369 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222005370 heme-binding residues [chemical binding]; other site 526222005371 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 526222005372 Alkaline phosphatase homologues; Region: alkPPc; smart00098 526222005373 active site 526222005374 dimer interface [polypeptide binding]; other site 526222005375 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 526222005376 YibE/F-like protein; Region: YibE_F; cl02259 526222005377 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 526222005378 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 526222005379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005380 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222005381 Zn2+ binding site [ion binding]; other site 526222005382 Mg2+ binding site [ion binding]; other site 526222005383 Short C-terminal domain; Region: SHOCT; cl01373 526222005384 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005385 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005386 active site 526222005387 phosphorylation site [posttranslational modification] 526222005388 intermolecular recognition site; other site 526222005389 dimerization interface [polypeptide binding]; other site 526222005390 Tim44-like domain; Region: Tim44; cl09208 526222005391 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 526222005392 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 526222005393 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222005394 Zn2+ binding site [ion binding]; other site 526222005395 Mg2+ binding site [ion binding]; other site 526222005396 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 526222005397 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222005398 DNA binding residues [nucleotide binding] 526222005399 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 526222005400 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 526222005401 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 526222005402 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 526222005403 metal binding site [ion binding]; metal-binding site 526222005404 Uncharacterized archaeal coiled-coil protein [Function unknown]; Region: COG1340 526222005405 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 526222005406 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222005407 FtsX-like permease family; Region: FtsX; cl15850 526222005408 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222005409 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 526222005410 Walker A/P-loop; other site 526222005411 ATP binding site [chemical binding]; other site 526222005412 Q-loop/lid; other site 526222005413 ABC transporter signature motif; other site 526222005414 Walker B; other site 526222005415 D-loop; other site 526222005416 H-loop/switch region; other site 526222005417 FtsX-like permease family; Region: FtsX; cl15850 526222005418 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 526222005419 NodB motif; other site 526222005420 putative active site [active] 526222005421 putative catalytic site [active] 526222005422 putative Zn binding site [ion binding]; other site 526222005423 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 526222005424 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 526222005425 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 526222005426 catalytic core [active] 526222005427 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 526222005428 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 526222005429 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 526222005430 putative ADP-binding pocket [chemical binding]; other site 526222005431 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 526222005432 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 526222005433 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 526222005434 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 526222005435 S-adenosylmethionine binding site [chemical binding]; other site 526222005436 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 526222005437 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 526222005438 PYR/PP interface [polypeptide binding]; other site 526222005439 dimer interface [polypeptide binding]; other site 526222005440 TPP binding site [chemical binding]; other site 526222005441 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 526222005442 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 526222005443 TPP-binding site [chemical binding]; other site 526222005444 dimer interface [polypeptide binding]; other site 526222005445 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 526222005446 putative valine binding site [chemical binding]; other site 526222005447 dimer interface [polypeptide binding]; other site 526222005448 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 526222005449 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 526222005450 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 526222005451 dimer interface [polypeptide binding]; other site 526222005452 substrate binding site [chemical binding]; other site 526222005453 phosphomethylpyrimidine kinase; Provisional; Region: PRK08573 526222005454 ATP binding site [chemical binding]; other site 526222005455 Putative aldolase; Region: Aldolase_2; cl00871 526222005456 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 526222005457 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 526222005458 Sodium:solute symporter family; Region: SSF; cl00456 526222005459 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 526222005460 THUMP domain; Region: THUMP; cl12076 526222005461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005462 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005464 active site 526222005465 phosphorylation site [posttranslational modification] 526222005466 intermolecular recognition site; other site 526222005467 dimerization interface [polypeptide binding]; other site 526222005468 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222005469 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222005470 dimer interface [polypeptide binding]; other site 526222005471 putative CheW interface [polypeptide binding]; other site 526222005472 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 526222005473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005474 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 526222005475 ornithine carbamoyltransferase; Provisional; Region: PRK00779 526222005476 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 526222005477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005478 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 526222005479 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 526222005480 ANP binding site [chemical binding]; other site 526222005481 Substrate Binding Site II [chemical binding]; other site 526222005482 Substrate Binding Site I [chemical binding]; other site 526222005483 argininosuccinate lyase; Provisional; Region: PRK00855 526222005484 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 526222005485 active sites [active] 526222005486 tetramer interface [polypeptide binding]; other site 526222005487 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 526222005488 octamerization interface [polypeptide binding]; other site 526222005489 diferric-oxygen binding site [ion binding]; other site 526222005490 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 526222005491 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 526222005492 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 526222005493 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 526222005494 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 526222005495 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 526222005496 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 526222005497 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 526222005498 dimerization interface [polypeptide binding]; other site 526222005499 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 526222005500 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 526222005501 FtsH Extracellular; Region: FtsH_ext; pfam06480 526222005502 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 526222005503 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 526222005504 Walker A motif; other site 526222005505 ATP binding site [chemical binding]; other site 526222005506 Walker B motif; other site 526222005507 arginine finger; other site 526222005508 Peptidase family M41; Region: Peptidase_M41; pfam01434 526222005509 dihydropteroate synthase; Region: DHPS; TIGR01496 526222005510 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 526222005511 substrate binding pocket [chemical binding]; other site 526222005512 dimer interface [polypeptide binding]; other site 526222005513 inhibitor binding site; inhibition site 526222005514 Uncharacterized conserved protein [Function unknown]; Region: COG1624 526222005515 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 526222005516 YbbR-like protein; Region: YbbR; pfam07949 526222005517 YbbR-like protein; Region: YbbR; pfam07949 526222005518 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 526222005519 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 526222005520 active site 526222005521 substrate binding site [chemical binding]; other site 526222005522 metal binding site [ion binding]; metal-binding site 526222005523 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 526222005524 active site 526222005525 tetramer interface; other site 526222005526 primosome assembly protein PriA; Validated; Region: PRK05580 526222005527 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 526222005528 primosome assembly protein PriA; Validated; Region: PRK05580 526222005529 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 526222005530 ATP binding site [chemical binding]; other site 526222005531 putative Mg++ binding site [ion binding]; other site 526222005532 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 526222005533 ATP-binding site [chemical binding]; other site 526222005534 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 526222005535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 526222005536 Smr domain; Region: Smr; cl02619 526222005537 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 526222005538 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 526222005539 Walker A/P-loop; other site 526222005540 ATP binding site [chemical binding]; other site 526222005541 Q-loop/lid; other site 526222005542 ABC transporter signature motif; other site 526222005543 Walker B; other site 526222005544 D-loop; other site 526222005545 H-loop/switch region; other site 526222005546 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 526222005547 FOG: CBS domain [General function prediction only]; Region: COG0517 526222005548 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 526222005549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005550 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 526222005551 Domain of unknown function (DUF368); Region: DUF368; cl00893 526222005552 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 526222005553 Walker A motif; other site 526222005554 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 526222005555 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 526222005556 Septum formation initiator; Region: DivIC; cl11433 526222005557 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 526222005558 TPR motif; other site 526222005559 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 526222005560 binding surface 526222005561 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 526222005562 AMP binding site [chemical binding]; other site 526222005563 metal binding site [ion binding]; metal-binding site 526222005564 active site 526222005565 UGMP family protein; Validated; Region: PRK09604 526222005566 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 526222005567 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 526222005568 catalytic residues [active] 526222005569 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 526222005570 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222005571 Outer membrane lipoprotein; Region: YfiO; pfam13525 526222005572 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 526222005573 elongation factor G; Reviewed; Region: PRK12740 526222005574 G1 box; other site 526222005575 putative GEF interaction site [polypeptide binding]; other site 526222005576 GTP/Mg2+ binding site [chemical binding]; other site 526222005577 Switch I region; other site 526222005578 G2 box; other site 526222005579 G3 box; other site 526222005580 Switch II region; other site 526222005581 G4 box; other site 526222005582 G5 box; other site 526222005583 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 526222005584 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 526222005585 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 526222005586 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 526222005587 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 526222005588 putative binding surface; other site 526222005589 active site 526222005590 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 526222005591 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 526222005592 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 526222005593 ATP binding site [chemical binding]; other site 526222005594 Mg2+ binding site [ion binding]; other site 526222005595 G-X-G motif; other site 526222005596 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 526222005597 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 526222005598 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 526222005599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005600 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 526222005601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005602 active site 526222005603 phosphorylation site [posttranslational modification] 526222005604 intermolecular recognition site; other site 526222005605 dimerization interface [polypeptide binding]; other site 526222005606 CheB methylesterase; Region: CheB_methylest; pfam01339 526222005607 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 526222005608 CrcB-like protein; Region: CRCB; cl09114 526222005609 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 526222005610 putative active site [active] 526222005611 putative metal binding residues [ion binding]; other site 526222005612 signature motif; other site 526222005613 putative triphosphate binding site [ion binding]; other site 526222005614 dimer interface [polypeptide binding]; other site 526222005615 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 526222005616 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 526222005617 Clp amino terminal domain; Region: Clp_N; pfam02861 526222005618 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 526222005619 Walker A motif; other site 526222005620 ATP binding site [chemical binding]; other site 526222005621 Walker B motif; other site 526222005622 arginine finger; other site 526222005623 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 526222005624 Walker A motif; other site 526222005625 ATP binding site [chemical binding]; other site 526222005626 Walker B motif; other site 526222005627 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 526222005628 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222005629 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 526222005630 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 526222005631 active site 526222005632 metal binding site [ion binding]; metal-binding site 526222005633 excinuclease ABC subunit B; Provisional; Region: PRK05298 526222005634 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 526222005635 ATP binding site [chemical binding]; other site 526222005636 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 526222005637 nucleotide binding region [chemical binding]; other site 526222005638 ATP-binding site [chemical binding]; other site 526222005639 Ultra-violet resistance protein B; Region: UvrB; pfam12344 526222005640 Ion channel; Region: Ion_trans_2; cl11596 526222005641 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 526222005642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005643 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; cl15357 526222005644 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 526222005645 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 526222005646 nucleotide binding pocket [chemical binding]; other site 526222005647 K-X-D-G motif; other site 526222005648 catalytic site [active] 526222005649 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 526222005650 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 526222005651 Dimer interface [polypeptide binding]; other site 526222005652 BRCT sequence motif; other site 526222005653 dihydrodipicolinate reductase; Provisional; Region: PRK00048 526222005654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005655 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 526222005656 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 526222005657 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 526222005658 putative active site [active] 526222005659 putative metal binding site [ion binding]; other site 526222005660 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 526222005661 classical (c) SDRs; Region: SDR_c; cd05233 526222005662 NAD(P) binding site [chemical binding]; other site 526222005663 active site 526222005664 GAF domain; Region: GAF_2; pfam13185 526222005665 GAF domain; Region: GAF; cl15785 526222005666 Histidine kinase; Region: HisKA_3; pfam07730 526222005667 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 526222005668 ATP binding site [chemical binding]; other site 526222005669 Mg2+ binding site [ion binding]; other site 526222005670 G-X-G motif; other site 526222005671 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 526222005672 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005673 active site 526222005674 phosphorylation site [posttranslational modification] 526222005675 intermolecular recognition site; other site 526222005676 dimerization interface [polypeptide binding]; other site 526222005677 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 526222005678 DNA binding residues [nucleotide binding] 526222005679 dimerization interface [polypeptide binding]; other site 526222005680 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222005681 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 526222005682 substrate binding pocket [chemical binding]; other site 526222005683 membrane-bound complex binding site; other site 526222005684 hinge residues; other site 526222005685 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 526222005686 Flavin Reductases; Region: FlaRed; cl00801 526222005687 Flavin Reductases; Region: FlaRed; cl00801 526222005688 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222005689 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222005690 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 526222005691 putative FMN binding site [chemical binding]; other site 526222005692 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 526222005693 putative active site [active] 526222005694 Zn binding site [ion binding]; other site 526222005695 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; cl15357 526222005696 transmembrane helices; other site 526222005697 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 526222005698 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; cl15357 526222005699 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 526222005700 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 526222005701 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 526222005702 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 526222005703 Walker A motif; other site 526222005704 ATP binding site [chemical binding]; other site 526222005705 Walker B motif; other site 526222005706 arginine finger; other site 526222005707 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 526222005708 dimer interface [polypeptide binding]; other site 526222005709 phosphorylation site [posttranslational modification] 526222005710 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 526222005711 ATP binding site [chemical binding]; other site 526222005712 G-X-G motif; other site 526222005713 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005714 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005715 active site 526222005716 phosphorylation site [posttranslational modification] 526222005717 intermolecular recognition site; other site 526222005718 dimerization interface [polypeptide binding]; other site 526222005719 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005720 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005721 active site 526222005722 phosphorylation site [posttranslational modification] 526222005723 intermolecular recognition site; other site 526222005724 dimerization interface [polypeptide binding]; other site 526222005725 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222005726 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 526222005727 transmembrane helices; other site 526222005728 putative diguanylate cyclase; Provisional; Region: PRK09776 526222005729 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005731 active site 526222005732 phosphorylation site [posttranslational modification] 526222005733 intermolecular recognition site; other site 526222005734 dimerization interface [polypeptide binding]; other site 526222005735 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222005736 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 526222005737 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222005738 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 526222005739 dimer interface [polypeptide binding]; other site 526222005740 phosphorylation site [posttranslational modification] 526222005741 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 526222005742 ATP binding site [chemical binding]; other site 526222005743 Mg2+ binding site [ion binding]; other site 526222005744 G-X-G motif; other site 526222005745 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005747 active site 526222005748 phosphorylation site [posttranslational modification] 526222005749 intermolecular recognition site; other site 526222005750 dimerization interface [polypeptide binding]; other site 526222005751 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 526222005752 dimer interface [polypeptide binding]; other site 526222005753 phosphorylation site [posttranslational modification] 526222005754 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 526222005755 ATP binding site [chemical binding]; other site 526222005756 Mg2+ binding site [ion binding]; other site 526222005757 G-X-G motif; other site 526222005758 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005760 active site 526222005761 phosphorylation site [posttranslational modification] 526222005762 intermolecular recognition site; other site 526222005763 dimerization interface [polypeptide binding]; other site 526222005764 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222005765 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222005766 dimer interface [polypeptide binding]; other site 526222005767 putative CheW interface [polypeptide binding]; other site 526222005768 hypothetical protein; Provisional; Region: PRK06851 526222005769 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005770 Glucose inhibited division protein A; Region: GIDA; pfam01134 526222005771 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222005772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005774 hypothetical protein; Provisional; Region: PRK05802 526222005775 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 526222005776 FAD binding pocket [chemical binding]; other site 526222005777 FAD binding motif [chemical binding]; other site 526222005778 phosphate binding motif [ion binding]; other site 526222005779 beta-alpha-beta structure motif; other site 526222005780 NAD binding pocket [chemical binding]; other site 526222005781 Iron coordination center [ion binding]; other site 526222005782 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222005783 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 526222005784 Walker A/P-loop; other site 526222005785 ATP binding site [chemical binding]; other site 526222005786 Q-loop/lid; other site 526222005787 ABC transporter signature motif; other site 526222005788 Walker B; other site 526222005789 D-loop; other site 526222005790 H-loop/switch region; other site 526222005791 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 526222005792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 526222005793 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 526222005794 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 526222005795 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 526222005796 S-adenosylmethionine binding site [chemical binding]; other site 526222005797 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 526222005798 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 526222005799 N-terminal plug; other site 526222005800 ligand-binding site [chemical binding]; other site 526222005801 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222005802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222005803 Response regulator receiver domain; Region: Response_reg; pfam00072 526222005804 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005805 active site 526222005806 phosphorylation site [posttranslational modification] 526222005807 intermolecular recognition site; other site 526222005808 dimerization interface [polypeptide binding]; other site 526222005809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222005810 active site 526222005811 phosphorylation site [posttranslational modification] 526222005812 intermolecular recognition site; other site 526222005813 dimerization interface [polypeptide binding]; other site 526222005814 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222005815 Zn2+ binding site [ion binding]; other site 526222005816 Mg2+ binding site [ion binding]; other site 526222005817 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222005818 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 526222005819 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 526222005820 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 526222005821 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222005822 substrate binding pocket [chemical binding]; other site 526222005823 membrane-bound complex binding site; other site 526222005824 hinge residues; other site 526222005825 NMT1/THI5 like; Region: NMT1; pfam09084 526222005826 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222005827 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 526222005828 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 526222005829 dimer interface [polypeptide binding]; other site 526222005830 phosphorylation site [posttranslational modification] 526222005831 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 526222005832 ATP binding site [chemical binding]; other site 526222005833 Mg2+ binding site [ion binding]; other site 526222005834 G-X-G motif; other site 526222005835 Bacitracin resistance protein BacA; Region: BacA; cl00858 526222005836 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 526222005837 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 526222005838 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 526222005839 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 526222005840 Predicted GTPase [General function prediction only]; Region: COG0218 526222005841 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 526222005842 G1 box; other site 526222005843 GTP/Mg2+ binding site [chemical binding]; other site 526222005844 Switch I region; other site 526222005845 G2 box; other site 526222005846 G3 box; other site 526222005847 Switch II region; other site 526222005848 G4 box; other site 526222005849 G5 box; other site 526222005850 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 526222005851 trimer interface [polypeptide binding]; other site 526222005852 active site 526222005853 dimer interface [polypeptide binding]; other site 526222005854 elongation factor P; Validated; Region: PRK00529 526222005855 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 526222005856 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 526222005857 RNA binding site [nucleotide binding]; other site 526222005858 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 526222005859 RNA binding site [nucleotide binding]; other site 526222005860 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 526222005861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222005862 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 526222005863 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 526222005864 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 526222005865 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 526222005866 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 526222005867 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 526222005868 RNA binding surface [nucleotide binding]; other site 526222005869 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 526222005870 active site 526222005871 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 526222005872 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 526222005873 CPxP motif; other site 526222005874 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 526222005875 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 526222005876 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 526222005877 Walker A/P-loop; other site 526222005878 ATP binding site [chemical binding]; other site 526222005879 Q-loop/lid; other site 526222005880 ABC transporter signature motif; other site 526222005881 Walker B; other site 526222005882 D-loop; other site 526222005883 H-loop/switch region; other site 526222005884 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 526222005885 putative acyl-acceptor binding pocket; other site 526222005886 Cache domain; Region: Cache_1; pfam02743 526222005887 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 526222005888 PAS fold; Region: PAS; pfam00989 526222005889 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 526222005890 putative active site [active] 526222005891 heme pocket [chemical binding]; other site 526222005892 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222005893 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222005894 dimer interface [polypeptide binding]; other site 526222005895 putative CheW interface [polypeptide binding]; other site 526222005896 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222005897 Zn2+ binding site [ion binding]; other site 526222005898 Mg2+ binding site [ion binding]; other site 526222005899 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222005900 dimer interface [polypeptide binding]; other site 526222005901 conserved gate region; other site 526222005902 putative PBP binding loops; other site 526222005903 ABC-ATPase subunit interface; other site 526222005904 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 526222005905 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222005906 substrate binding pocket [chemical binding]; other site 526222005907 membrane-bound complex binding site; other site 526222005908 hinge residues; other site 526222005909 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222005910 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 526222005911 substrate binding pocket [chemical binding]; other site 526222005912 membrane-bound complex binding site; other site 526222005913 hinge residues; other site 526222005914 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222005915 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222005916 dimer interface [polypeptide binding]; other site 526222005917 conserved gate region; other site 526222005918 putative PBP binding loops; other site 526222005919 ABC-ATPase subunit interface; other site 526222005920 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 526222005921 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 526222005922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222005923 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 526222005924 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 526222005925 hypothetical protein; Provisional; Region: PRK08185 526222005926 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 526222005927 intersubunit interface [polypeptide binding]; other site 526222005928 active site 526222005929 zinc binding site [ion binding]; other site 526222005930 Na+ binding site [ion binding]; other site 526222005931 Survival protein SurE; Region: SurE; cl00448 526222005932 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 526222005933 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 inactive in...; Region: YhaM_OBF_like; cd04492 526222005934 generic binding surface I; other site 526222005935 generic binding surface II; other site 526222005936 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222005937 Zn2+ binding site [ion binding]; other site 526222005938 Mg2+ binding site [ion binding]; other site 526222005939 thymidylate kinase; Validated; Region: tmk; PRK00698 526222005940 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 526222005941 TMP-binding site; other site 526222005942 ATP-binding site [chemical binding]; other site 526222005943 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 526222005944 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 526222005945 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 526222005946 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 526222005947 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 526222005948 putative substrate-binding site; other site 526222005949 nickel binding site [ion binding]; other site 526222005950 HupF/HypC family; Region: HupF_HypC; cl00394 526222005951 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 526222005952 ligand binding surface [chemical binding]; other site 526222005953 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 526222005954 peptidase T-like protein; Region: PepT-like; TIGR01883 526222005955 metal binding site [ion binding]; metal-binding site 526222005956 putative dimer interface [polypeptide binding]; other site 526222005957 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 526222005958 homodimer interaction site [polypeptide binding]; other site 526222005959 cofactor binding site; other site 526222005960 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222005961 heme-binding residues [chemical binding]; other site 526222005962 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 526222005963 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 526222005964 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 526222005965 [4Fe-4S] binding site [ion binding]; other site 526222005966 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 526222005967 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 526222005968 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 526222005969 molybdopterin cofactor binding site; other site 526222005970 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222005971 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 526222005972 S-adenosylmethionine binding site [chemical binding]; other site 526222005973 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 526222005974 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 526222005975 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 526222005976 GAF domain; Region: GAF; cl15785 526222005977 GAF domain; Region: GAF_2; pfam13185 526222005978 GAF domain; Region: GAF; cl15785 526222005979 GAF domain; Region: GAF_2; pfam13185 526222005980 rod shape-determining protein MreB; Provisional; Region: PRK13930 526222005981 Cell division protein FtsA; Region: FtsA; cl11496 526222005982 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 526222005983 active site 526222005984 dimerization interface [polypeptide binding]; other site 526222005985 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 526222005986 nudix motif; other site 526222005987 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 526222005988 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222005989 Coenzyme A binding pocket [chemical binding]; other site 526222005990 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222005991 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 526222005992 Phosphoglycerate kinase; Region: PGK; pfam00162 526222005993 substrate binding site [chemical binding]; other site 526222005994 hinge regions; other site 526222005995 ADP binding site [chemical binding]; other site 526222005996 catalytic site [active] 526222005997 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 526222005998 substrate binding site [chemical binding]; other site 526222005999 dimer interface [polypeptide binding]; other site 526222006000 catalytic triad [active] 526222006001 Preprotein translocase SecG subunit; Region: SecG; cl09123 526222006002 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 526222006003 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 526222006004 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222006005 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 526222006006 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 526222006007 active site 526222006008 Ion channel; Region: Ion_trans_2; cl11596 526222006009 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 526222006010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222006011 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 526222006012 octamerization interface [polypeptide binding]; other site 526222006013 diferric-oxygen binding site [ion binding]; other site 526222006014 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 526222006015 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 526222006016 metal binding site [ion binding]; metal-binding site 526222006017 putative dimer interface [polypeptide binding]; other site 526222006018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 526222006019 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; cl09108 526222006020 catalytic residue [active] 526222006021 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 526222006022 catalytic center binding site [active] 526222006023 ATP binding site [chemical binding]; other site 526222006024 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 526222006025 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 526222006026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222006027 homodimer interface [polypeptide binding]; other site 526222006028 catalytic residue [active] 526222006029 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 526222006030 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 526222006031 Int/Topo IB signature motif; other site 526222006032 active site 526222006033 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 526222006034 DHH family; Region: DHH; pfam01368 526222006035 DHHA1 domain; Region: DHHA1; pfam02272 526222006036 FOG: CBS domain [General function prediction only]; Region: COG0517 526222006037 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 526222006038 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 526222006039 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 526222006040 active site 526222006041 NTP binding site [chemical binding]; other site 526222006042 metal binding triad [ion binding]; metal-binding site 526222006043 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222006044 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 526222006045 nucleotide binding site/active site [active] 526222006046 HIT family signature motif; other site 526222006047 catalytic residue [active] 526222006048 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 526222006049 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 526222006050 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 526222006051 TPR motif; other site 526222006052 binding surface 526222006053 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 526222006054 binding surface 526222006055 TPR motif; other site 526222006056 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 526222006057 MutS domain I; Region: MutS_I; pfam01624 526222006058 MutS domain II; Region: MutS_II; pfam05188 526222006059 MutS family domain IV; Region: MutS_IV; pfam05190 526222006060 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 526222006061 Walker A/P-loop; other site 526222006062 ATP binding site [chemical binding]; other site 526222006063 Q-loop/lid; other site 526222006064 ABC transporter signature motif; other site 526222006065 Walker B; other site 526222006066 D-loop; other site 526222006067 H-loop/switch region; other site 526222006068 diaminopimelate decarboxylase; Region: lysA; TIGR01048 526222006069 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 526222006070 active site 526222006071 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 526222006072 substrate binding site [chemical binding]; other site 526222006073 catalytic residues [active] 526222006074 dimer interface [polypeptide binding]; other site 526222006075 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 526222006076 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 526222006077 recombination factor protein RarA; Reviewed; Region: PRK13342 526222006078 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 526222006079 Walker A motif; other site 526222006080 ATP binding site [chemical binding]; other site 526222006081 Walker B motif; other site 526222006082 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 526222006083 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 526222006084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222006085 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 526222006086 dimer interface [polypeptide binding]; other site 526222006087 phosphorylation site [posttranslational modification] 526222006088 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 526222006089 ATP binding site [chemical binding]; other site 526222006090 Mg2+ binding site [ion binding]; other site 526222006091 G-X-G motif; other site 526222006092 HDOD domain; Region: HDOD; pfam08668 526222006093 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222006094 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 526222006095 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 526222006096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222006097 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 526222006098 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 526222006099 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222006100 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 526222006101 putative active site [active] 526222006102 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 526222006103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222006104 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 526222006105 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 526222006106 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 526222006107 tRNA; other site 526222006108 putative tRNA binding site [nucleotide binding]; other site 526222006109 putative NADP binding site [chemical binding]; other site 526222006110 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 526222006111 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 526222006112 Ligand Binding Site [chemical binding]; other site 526222006113 adenylate kinase; Provisional; Region: PRK14529 526222006114 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 526222006115 AMP-binding site [chemical binding]; other site 526222006116 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 526222006117 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 526222006118 putative trimer interface [polypeptide binding]; other site 526222006119 putative CoA binding site [chemical binding]; other site 526222006120 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 526222006121 MgtE intracellular N domain; Region: MgtE_N; cl15244 526222006122 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 526222006123 Divalent cation transporter; Region: MgtE; cl00786 526222006124 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 526222006125 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 526222006126 dimerization interface [polypeptide binding]; other site 526222006127 active site 526222006128 Quinolinate synthetase A protein; Region: NadA; cl00420 526222006129 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 526222006130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222006131 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 526222006132 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 526222006133 Cation transport protein; Region: TrkH; cl10514 526222006134 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 526222006135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222006136 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; cl15357 526222006137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222006138 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; cl15357 526222006139 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 526222006140 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 526222006141 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 526222006142 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 526222006143 dimer interface [polypeptide binding]; other site 526222006144 motif 1; other site 526222006145 active site 526222006146 motif 2; other site 526222006147 motif 3; other site 526222006148 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 526222006149 Recombination protein O N terminal; Region: RecO_N; cl15812 526222006150 Recombination protein O C terminal; Region: RecO_C; pfam02565 526222006151 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 526222006152 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 526222006153 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 526222006154 SurA N-terminal domain; Region: SurA_N_3; cl07813 526222006155 PPIC-type PPIASE domain; Region: Rotamase; cl08278 526222006156 SurA N-terminal domain; Region: SurA_N_3; cl07813 526222006157 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 526222006158 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 526222006159 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 526222006160 ATP binding site [chemical binding]; other site 526222006161 putative Mg++ binding site [ion binding]; other site 526222006162 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 526222006163 nucleotide binding region [chemical binding]; other site 526222006164 ATP-binding site [chemical binding]; other site 526222006165 TRCF domain; Region: TRCF; cl04088 526222006166 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 526222006167 putative CheA interaction surface; other site 526222006168 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 526222006169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222006170 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 526222006171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222006172 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 the...; Region: PNPsynthase; cd00003 526222006173 active site 526222006174 hydrophilic channel; other site 526222006175 dimerization interface [polypeptide binding]; other site 526222006176 catalytic residues [active] 526222006177 active site lid [active] 526222006178 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 526222006179 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 526222006180 putative carbohydrate kinase; Provisional; Region: PRK10565 526222006181 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 526222006182 putative substrate binding site [chemical binding]; other site 526222006183 putative ATP binding site [chemical binding]; other site 526222006184 FOG: CBS domain [General function prediction only]; Region: COG0517 526222006185 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 526222006186 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 526222006187 aspartate kinase; Reviewed; Region: PRK06635 526222006188 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 526222006189 putative nucleotide binding site [chemical binding]; other site 526222006190 putative catalytic residues [active] 526222006191 putative Mg ion binding site [ion binding]; other site 526222006192 putative aspartate binding site [chemical binding]; other site 526222006193 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 526222006194 putative allosteric regulatory site; other site 526222006195 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 526222006196 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 526222006197 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 526222006198 active site 526222006199 catalytic residues [active] 526222006200 metal binding site [ion binding]; metal-binding site 526222006201 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 526222006202 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222006203 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 526222006204 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 526222006205 Protein of unknown function (DUF493); Region: DUF493; cl01102 526222006206 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 526222006207 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 526222006208 active site 526222006209 HIGH motif; other site 526222006210 nucleotide binding site [chemical binding]; other site 526222006211 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 526222006212 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 526222006213 active site 526222006214 KMSKS motif; other site 526222006215 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 526222006216 tRNA binding surface [nucleotide binding]; other site 526222006217 anticodon binding site; other site 526222006218 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 526222006219 lipoprotein signal peptidase; Provisional; Region: PRK14787 526222006220 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 526222006221 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 526222006222 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 526222006223 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 526222006224 Tetratricopeptide repeat; Region: TPR_6; pfam13174 526222006225 NIL domain; Region: NIL; cl09633 526222006226 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222006227 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222006228 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 526222006229 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 526222006230 binding surface 526222006231 TPR motif; other site 526222006232 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006233 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006234 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006235 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 526222006236 binding surface 526222006237 TPR motif; other site 526222006238 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006239 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 526222006240 binding surface 526222006241 TPR motif; other site 526222006242 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222006243 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 526222006244 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 526222006245 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222006246 aromatic acid decarboxylase; Validated; Region: PRK05920 526222006247 Flavoprotein; Region: Flavoprotein; cl08021 526222006248 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222006249 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 526222006250 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 526222006251 GIY-YIG motif/motif A; other site 526222006252 active site 526222006253 catalytic site [active] 526222006254 putative DNA binding site [nucleotide binding]; other site 526222006255 metal binding site [ion binding]; metal-binding site 526222006256 UvrB/uvrC motif; Region: UVR; pfam02151 526222006257 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 526222006258 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 526222006259 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 526222006260 histidinol dehydrogenase; Region: hisD; TIGR00069 526222006261 NAD binding site [chemical binding]; other site 526222006262 dimerization interface [polypeptide binding]; other site 526222006263 product binding site; other site 526222006264 substrate binding site [chemical binding]; other site 526222006265 zinc binding site [ion binding]; other site 526222006266 catalytic residues [active] 526222006267 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 526222006268 ATP binding site [chemical binding]; other site 526222006269 active site 526222006270 substrate binding site [chemical binding]; other site 526222006271 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 526222006272 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 526222006273 NAD binding site [chemical binding]; other site 526222006274 homotetramer interface [polypeptide binding]; other site 526222006275 homodimer interface [polypeptide binding]; other site 526222006276 substrate binding site [chemical binding]; other site 526222006277 active site 526222006278 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 526222006279 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 526222006280 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 526222006281 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 526222006282 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 526222006283 replicative DNA helicase; Region: DnaB; TIGR00665 526222006284 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 526222006285 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 526222006286 Walker A motif; other site 526222006287 ATP binding site [chemical binding]; other site 526222006288 Walker B motif; other site 526222006289 DNA binding loops [nucleotide binding] 526222006290 AMP-binding enzyme; Region: AMP-binding; cl15778 526222006291 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 526222006292 Protein of unknown function (DUF456); Region: DUF456; cl01069 526222006293 threonine synthase; Validated; Region: PRK06260 526222006294 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 526222006295 homodimer interface [polypeptide binding]; other site 526222006296 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222006297 catalytic residue [active] 526222006298 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 526222006299 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 526222006300 RNA binding surface [nucleotide binding]; other site 526222006301 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; cl15754 526222006302 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 526222006303 conserved hypothetical protein; Region: TIGR02231 526222006304 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 526222006305 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 526222006306 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 526222006307 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 526222006308 NAD binding site [chemical binding]; other site 526222006309 homodimer interface [polypeptide binding]; other site 526222006310 active site 526222006311 substrate binding site [chemical binding]; other site 526222006312 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 526222006313 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 526222006314 S-adenosylmethionine binding site [chemical binding]; other site 526222006315 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 526222006316 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222006317 putative exosortase-associated protein, TIGR04073 family; Region: exo_TIGR04073 526222006318 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222006319 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 526222006320 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; cl09155 526222006321 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 526222006322 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 526222006323 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222006324 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 526222006325 ligand binding site [chemical binding]; other site 526222006326 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 526222006327 ligand binding site [chemical binding]; other site 526222006328 flexible hinge region; other site 526222006329 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 526222006330 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 526222006331 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 526222006332 metal binding triad [ion binding]; metal-binding site 526222006333 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 526222006334 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 526222006335 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222006336 CoA-ligase; Region: Ligase_CoA; cl02894 526222006337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222006338 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 526222006339 CoA-ligase; Region: Ligase_CoA; cl02894 526222006340 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222006341 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 526222006342 iron-sulfur cluster binding protein, putative; Region: TIGR00276 526222006343 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 526222006344 nickel binding site [ion binding]; other site 526222006345 putative substrate-binding site; other site 526222006346 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 526222006347 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 526222006348 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 526222006349 Protein of unknown function (DUF1628); Region: DUF1628; cl01360 526222006350 Peptidase family M23; Region: Peptidase_M23; pfam01551 526222006351 YibE/F-like protein; Region: YibE_F; cl02259 526222006352 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 526222006353 Alkaline phosphatase homologues; Region: alkPPc; smart00098 526222006354 active site 526222006355 dimer interface [polypeptide binding]; other site 526222006356 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 526222006357 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 526222006358 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 526222006359 Walker A/P-loop; other site 526222006360 ATP binding site [chemical binding]; other site 526222006361 Q-loop/lid; other site 526222006362 ABC transporter signature motif; other site 526222006363 Walker B; other site 526222006364 D-loop; other site 526222006365 H-loop/switch region; other site 526222006366 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 526222006367 ABC-ATPase subunit interface; other site 526222006368 dimer interface [polypeptide binding]; other site 526222006369 putative PBP binding regions; other site 526222006370 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 526222006371 putative metal binding site [ion binding]; other site 526222006372 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 526222006373 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 526222006374 Found in ATP-dependent protease La (LON); Region: LON; smart00464 526222006375 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 526222006376 Walker A motif; other site 526222006377 ATP binding site [chemical binding]; other site 526222006378 Walker B motif; other site 526222006379 arginine finger; other site 526222006380 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 526222006381 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222006382 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 526222006383 PAS fold; Region: PAS_3; pfam08447 526222006384 putative active site [active] 526222006385 heme pocket [chemical binding]; other site 526222006386 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 526222006387 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222006388 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 526222006389 dimer interface [polypeptide binding]; other site 526222006390 phosphorylation site [posttranslational modification] 526222006391 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 526222006392 ATP binding site [chemical binding]; other site 526222006393 Mg2+ binding site [ion binding]; other site 526222006394 G-X-G motif; other site 526222006395 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 526222006396 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 526222006397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222006398 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 526222006399 Walker A motif; other site 526222006400 ATP binding site [chemical binding]; other site 526222006401 Walker B motif; other site 526222006402 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 526222006403 Clp protease; Region: CLP_protease; pfam00574 526222006404 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 526222006405 oligomer interface [polypeptide binding]; other site 526222006406 active site residues [active] 526222006407 trigger factor; Region: tig; TIGR00115 526222006408 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 526222006409 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 526222006410 photosystem I assembly protein Ycf3; Provisional; Region: PRK02603 526222006411 Membrane transport protein; Region: Mem_trans; cl09117 526222006412 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222006413 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 526222006414 ligand binding site [chemical binding]; other site 526222006415 flexible hinge region; other site 526222006416 Helix-turn-helix domains; Region: HTH; cl00088 526222006417 LysE type translocator; Region: LysE; cl00565 526222006418 Cupin domain; Region: Cupin_2; cl09118 526222006419 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222006420 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222006421 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222006422 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222006423 dimer interface [polypeptide binding]; other site 526222006424 putative CheW interface [polypeptide binding]; other site 526222006425 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 526222006426 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 526222006427 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 526222006428 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 526222006429 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 526222006430 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 526222006431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222006432 Walker A/P-loop; other site 526222006433 ATP binding site [chemical binding]; other site 526222006434 Q-loop/lid; other site 526222006435 ABC transporter signature motif; other site 526222006436 Walker B; other site 526222006437 D-loop; other site 526222006438 H-loop/switch region; other site 526222006439 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 526222006440 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 526222006441 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 526222006442 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 526222006443 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 526222006444 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 526222006445 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 526222006446 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 526222006447 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 526222006448 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222006449 Walker A/P-loop; other site 526222006450 ATP binding site [chemical binding]; other site 526222006451 Q-loop/lid; other site 526222006452 ABC transporter signature motif; other site 526222006453 Walker B; other site 526222006454 D-loop; other site 526222006455 H-loop/switch region; other site 526222006456 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 526222006457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222006458 Walker A/P-loop; other site 526222006459 ATP binding site [chemical binding]; other site 526222006460 ABC transporter; Region: ABC_tran; pfam00005 526222006461 Q-loop/lid; other site 526222006462 ABC transporter signature motif; other site 526222006463 Walker B; other site 526222006464 D-loop; other site 526222006465 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 526222006466 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222006467 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222006468 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 526222006469 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 526222006470 Gram-negative bacterial tonB protein; Region: TonB; cl10048 526222006471 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 526222006472 binding surface 526222006473 TPR motif; other site 526222006474 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 526222006475 binding surface 526222006476 TPR motif; other site 526222006477 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 526222006478 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222006479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222006480 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222006481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222006482 active site 526222006483 phosphorylation site [posttranslational modification] 526222006484 intermolecular recognition site; other site 526222006485 dimerization interface [polypeptide binding]; other site 526222006486 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 526222006487 Walker A motif; other site 526222006488 ATP binding site [chemical binding]; other site 526222006489 Walker B motif; other site 526222006490 arginine finger; other site 526222006491 Helix-turn-helix domains; Region: HTH; cl00088 526222006492 Sensory domain found in PocR; Region: PocR; pfam10114 526222006493 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 526222006494 PAS domain S-box; Region: sensory_box; TIGR00229 526222006495 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 526222006496 putative active site [active] 526222006497 heme pocket [chemical binding]; other site 526222006498 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 526222006499 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 526222006500 ATP binding site [chemical binding]; other site 526222006501 Mg2+ binding site [ion binding]; other site 526222006502 G-X-G motif; other site 526222006503 Domain of unknown function (DUF336); Region: DUF336; cl01249 526222006504 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 526222006505 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 526222006506 dimer interface [polypeptide binding]; other site 526222006507 active site 526222006508 glycine loop; other site 526222006509 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 526222006510 4Fe-4S binding domain; Region: Fer4; cl02805 526222006511 CHASE domain; Region: CHASE; cl01369 526222006512 PAS fold; Region: PAS_3; pfam08447 526222006513 PAS domain S-box; Region: sensory_box; TIGR00229 526222006514 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 526222006515 putative active site [active] 526222006516 heme pocket [chemical binding]; other site 526222006517 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 526222006518 PAS fold; Region: PAS_3; pfam08447 526222006519 putative active site [active] 526222006520 heme pocket [chemical binding]; other site 526222006521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222006522 metal binding site [ion binding]; metal-binding site 526222006523 active site 526222006524 I-site; other site 526222006525 DoxX; Region: DoxX; cl00976 526222006526 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 526222006527 active site residue [active] 526222006528 Cupin domain; Region: Cupin_2; cl09118 526222006529 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 526222006530 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 526222006531 Cache domain; Region: Cache_2; cl07034 526222006532 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 526222006533 Cache domain; Region: Cache_2; cl07034 526222006534 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 526222006535 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222006536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222006537 dimer interface [polypeptide binding]; other site 526222006538 putative CheW interface [polypeptide binding]; other site 526222006539 TolA protein; Region: tolA_full; TIGR02794 526222006540 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 526222006541 BON domain; Region: BON; cl02771 526222006542 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 526222006543 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 526222006544 substrate pocket [chemical binding]; other site 526222006545 active site 526222006546 proteolytic cleavage site; other site 526222006547 dimer interface [polypeptide binding]; other site 526222006548 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 526222006549 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 526222006550 Phage Tail Protein X; Region: Phage_tail_X; cl02088 526222006551 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 526222006552 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 526222006553 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 526222006554 Phage tail tube protein FII; Region: Phage_tube; cl01390 526222006555 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 526222006556 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; cl01922 526222006557 Asp-box motif; other site 526222006558 catalytic site [active] 526222006559 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 526222006560 Baseplate J-like protein; Region: Baseplate_J; cl01294 526222006561 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 526222006562 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 526222006563 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 526222006564 amidase catalytic site [active] 526222006565 Zn binding residues [ion binding]; other site 526222006566 substrate binding site [chemical binding]; other site 526222006567 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 526222006568 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 526222006569 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 526222006570 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 526222006571 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; cl00038 526222006572 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 526222006573 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 526222006574 DNA primase (bacterial type) [DNA replication, recombination, and repair]; Region: DnaG; COG0358 526222006575 CHC2 zinc finger; Region: zf-CHC2; cl15369 526222006576 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 526222006577 active site 526222006578 metal binding site [ion binding]; metal-binding site 526222006579 interdomain interaction site; other site 526222006580 D5 N terminal like; Region: D5_N; cl07360 526222006581 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 526222006582 Helix-turn-helix domains; Region: HTH; cl00088 526222006583 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 526222006584 Uncharacterized conserved protein [Function unknown]; Region: COG4748 526222006585 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 526222006586 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 526222006587 DNA binding site [nucleotide binding] 526222006588 Int/Topo IB signature motif; other site 526222006589 active site 526222006590 catalytic residues [active] 526222006591 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 526222006592 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 526222006593 heterodimer interface [polypeptide binding]; other site 526222006594 active site 526222006595 FMN binding site [chemical binding]; other site 526222006596 homodimer interface [polypeptide binding]; other site 526222006597 substrate binding site [chemical binding]; other site 526222006598 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 526222006599 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 526222006600 FAD binding pocket [chemical binding]; other site 526222006601 FAD binding motif [chemical binding]; other site 526222006602 phosphate binding motif [ion binding]; other site 526222006603 beta-alpha-beta structure motif; other site 526222006604 NAD binding pocket [chemical binding]; other site 526222006605 Iron coordination center [ion binding]; other site 526222006606 Peptidase family U32; Region: Peptidase_U32; cl03113 526222006607 Peptidase family U32; Region: Peptidase_U32; cl03113 526222006608 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 526222006609 non-specific DNA binding site [nucleotide binding]; other site 526222006610 salt bridge; other site 526222006611 sequence-specific DNA binding site [nucleotide binding]; other site 526222006612 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 526222006613 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222006614 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 526222006615 DctM-like transporters; Region: DctM; pfam06808 526222006616 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 526222006617 allantoate amidohydrolase; Reviewed; Region: PRK09290 526222006618 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 526222006619 active site 526222006620 metal binding site [ion binding]; metal-binding site 526222006621 dimer interface [polypeptide binding]; other site 526222006622 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 526222006623 active site 526222006624 substrate binding pocket [chemical binding]; other site 526222006625 dimer interface [polypeptide binding]; other site 526222006626 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 526222006627 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222006628 active site 526222006629 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 526222006630 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 526222006631 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222006632 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222006633 dimer interface [polypeptide binding]; other site 526222006634 putative CheW interface [polypeptide binding]; other site 526222006635 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 526222006636 Transglycosylase; Region: Transgly; cl07896 526222006637 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 526222006638 Flagellin N-methylase; Region: FliB; cl00497 526222006639 amidophosphoribosyltransferase; Region: purF; TIGR01134 526222006640 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 526222006641 active site 526222006642 tetramer interface [polypeptide binding]; other site 526222006643 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222006644 active site 526222006645 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 526222006646 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 526222006647 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222006648 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 526222006649 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 526222006650 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222006651 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 526222006652 IMP binding site; other site 526222006653 dimer interface [polypeptide binding]; other site 526222006654 interdomain contacts; other site 526222006655 partial ornithine binding site; other site 526222006656 FeoA domain; Region: FeoA; cl00838 526222006657 SlyX; Region: SlyX; cl01090 526222006658 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 526222006659 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 526222006660 active site 526222006661 HIGH motif; other site 526222006662 KMSKS motif; other site 526222006663 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 526222006664 tRNA binding surface [nucleotide binding]; other site 526222006665 anticodon binding site; other site 526222006666 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 526222006667 dimer interface [polypeptide binding]; other site 526222006668 putative tRNA-binding site [nucleotide binding]; other site 526222006669 PSP1 C-terminal conserved region; Region: PSP1; cl00770 526222006670 Response regulator receiver domain; Region: Response_reg; pfam00072 526222006671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222006672 active site 526222006673 phosphorylation site [posttranslational modification] 526222006674 intermolecular recognition site; other site 526222006675 dimerization interface [polypeptide binding]; other site 526222006676 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 526222006677 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 526222006678 Competence protein; Region: Competence; cl00471 526222006679 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222006680 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 526222006681 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 526222006682 hinge; other site 526222006683 active site 526222006684 putative transporter; Provisional; Region: PRK11660 526222006685 Sulfate transporter family; Region: Sulfate_transp; cl15842 526222006686 Sulfate transporter family; Region: Sulfate_transp; cl15842 526222006687 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 526222006688 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 526222006689 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 526222006690 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 526222006691 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 526222006692 G1 box; other site 526222006693 putative GEF interaction site [polypeptide binding]; other site 526222006694 GTP/Mg2+ binding site [chemical binding]; other site 526222006695 Switch I region; other site 526222006696 G2 box; other site 526222006697 G3 box; other site 526222006698 Switch II region; other site 526222006699 G4 box; other site 526222006700 G5 box; other site 526222006701 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 526222006702 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 526222006703 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 526222006704 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 526222006705 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 526222006706 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 526222006707 oligomer interface [polypeptide binding]; other site 526222006708 putative active site [active] 526222006709 metal binding site [ion binding]; metal-binding site 526222006710 selenocysteine synthase; Provisional; Region: PRK04311 526222006711 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 526222006712 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 526222006713 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 526222006714 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 526222006715 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 526222006716 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222006717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222006718 active site 526222006719 phosphorylation site [posttranslational modification] 526222006720 intermolecular recognition site; other site 526222006721 dimerization interface [polypeptide binding]; other site 526222006722 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 526222006723 Walker A motif; other site 526222006724 ATP binding site [chemical binding]; other site 526222006725 Walker B motif; other site 526222006726 arginine finger; other site 526222006727 Helix-turn-helix domains; Region: HTH; cl00088 526222006728 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 526222006729 PAS domain; Region: PAS_9; pfam13426 526222006730 putative active site [active] 526222006731 heme pocket [chemical binding]; other site 526222006732 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 526222006733 dimer interface [polypeptide binding]; other site 526222006734 phosphorylation site [posttranslational modification] 526222006735 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 526222006736 ATP binding site [chemical binding]; other site 526222006737 Mg2+ binding site [ion binding]; other site 526222006738 G-X-G motif; other site 526222006739 Response regulator receiver domain; Region: Response_reg; pfam00072 526222006740 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222006741 active site 526222006742 phosphorylation site [posttranslational modification] 526222006743 intermolecular recognition site; other site 526222006744 dimerization interface [polypeptide binding]; other site 526222006745 Response regulator receiver domain; Region: Response_reg; pfam00072 526222006746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222006747 active site 526222006748 phosphorylation site [posttranslational modification] 526222006749 intermolecular recognition site; other site 526222006750 dimerization interface [polypeptide binding]; other site 526222006751 Response regulator receiver domain; Region: Response_reg; pfam00072 526222006752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222006753 active site 526222006754 phosphorylation site [posttranslational modification] 526222006755 intermolecular recognition site; other site 526222006756 dimerization interface [polypeptide binding]; other site 526222006757 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 526222006758 dimer interface [polypeptide binding]; other site 526222006759 phosphorylation site [posttranslational modification] 526222006760 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 526222006761 ATP binding site [chemical binding]; other site 526222006762 Mg2+ binding site [ion binding]; other site 526222006763 G-X-G motif; other site 526222006764 Response regulator receiver domain; Region: Response_reg; pfam00072 526222006765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222006766 active site 526222006767 phosphorylation site [posttranslational modification] 526222006768 intermolecular recognition site; other site 526222006769 dimerization interface [polypeptide binding]; other site 526222006770 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222006771 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 526222006772 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 526222006773 putative catalytic residues [active] 526222006774 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 526222006775 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 526222006776 Membrane transport protein; Region: Mem_trans; cl09117 526222006777 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 526222006778 dimerization interface [polypeptide binding]; other site 526222006779 putative DNA binding site [nucleotide binding]; other site 526222006780 putative Zn2+ binding site [ion binding]; other site 526222006781 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 526222006782 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 526222006783 catalytic residues [active] 526222006784 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222006785 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 526222006786 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 526222006787 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 526222006788 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 526222006789 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 526222006790 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 526222006791 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 526222006792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222006793 Walker A/P-loop; other site 526222006794 ATP binding site [chemical binding]; other site 526222006795 Q-loop/lid; other site 526222006796 ABC transporter signature motif; other site 526222006797 Walker B; other site 526222006798 D-loop; other site 526222006799 H-loop/switch region; other site 526222006800 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 526222006801 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 526222006802 PAS fold; Region: PAS_4; pfam08448 526222006803 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222006804 Zn2+ binding site [ion binding]; other site 526222006805 Mg2+ binding site [ion binding]; other site 526222006806 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 526222006807 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222006808 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 526222006809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222006810 active site 526222006811 phosphorylation site [posttranslational modification] 526222006812 intermolecular recognition site; other site 526222006813 dimerization interface [polypeptide binding]; other site 526222006814 LytTr DNA-binding domain; Region: LytTR; cl04498 526222006815 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 526222006816 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 526222006817 GAF domain; Region: GAF; cl15785 526222006818 Histidine kinase; Region: His_kinase; pfam06580 526222006819 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 526222006820 ATP binding site [chemical binding]; other site 526222006821 Mg2+ binding site [ion binding]; other site 526222006822 G-X-G motif; other site 526222006823 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222006824 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222006825 Fic/DOC family; Region: Fic; cl00960 526222006826 Carbon starvation protein CstA; Region: CstA; pfam02554 526222006827 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 526222006828 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 526222006829 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 526222006830 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 526222006831 substrate pocket [chemical binding]; other site 526222006832 active site 526222006833 dimer interface [polypeptide binding]; other site 526222006834 TolB amino-terminal domain; Region: TolB_N; cl00639 526222006835 ATP synthase; Region: ATP-synt; cl00365 526222006836 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 526222006837 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 526222006838 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222006839 Walker A motif; other site 526222006840 ATP binding site [chemical binding]; other site 526222006841 Walker B motif; other site 526222006842 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 526222006843 Plant ATP synthase F0; Region: YMF19; cl07975 526222006844 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 526222006845 ATP synthase subunit C; Region: ATP-synt_C; cl00466 526222006846 ATP synthase A chain; Region: ATP-synt_A; cl00413 526222006847 N-ATPase, AtpR subunit; Region: AtpR; cl11871 526222006848 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 526222006849 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 526222006850 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 526222006851 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 526222006852 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 526222006853 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 526222006854 alpha subunit interaction interface [polypeptide binding]; other site 526222006855 Walker A motif; other site 526222006856 ATP binding site [chemical binding]; other site 526222006857 Walker B motif; other site 526222006858 inhibitor binding site; inhibition site 526222006859 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 526222006860 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 526222006861 active site 526222006862 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 526222006863 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 526222006864 ATP binding site [chemical binding]; other site 526222006865 putative Mg++ binding site [ion binding]; other site 526222006866 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 526222006867 nucleotide binding region [chemical binding]; other site 526222006868 ATP-binding site [chemical binding]; other site 526222006869 RQC domain; Region: RQC; cl09632 526222006870 HRDC domain; Region: HRDC; cl02578 526222006871 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; cl15306 526222006872 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222006873 substrate binding pocket [chemical binding]; other site 526222006874 membrane-bound complex binding site; other site 526222006875 hinge residues; other site 526222006876 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 526222006877 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 526222006878 Putative cyclase; Region: Cyclase; cl00814 526222006879 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 526222006880 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 526222006881 tetramerization interface [polypeptide binding]; other site 526222006882 active site 526222006883 Ubiquitin-like proteins; Region: UBQ; cl00155 526222006884 charged pocket; other site 526222006885 hydrophobic patch; other site 526222006886 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 526222006887 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 526222006888 DHH family; Region: DHH; pfam01368 526222006889 DHHA2 domain; Region: DHHA2; pfam02833 526222006890 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 526222006891 active site 526222006892 phosphorylation site [posttranslational modification] 526222006893 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 526222006894 active pocket/dimerization site; other site 526222006895 active site 526222006896 phosphorylation site [posttranslational modification] 526222006897 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 526222006898 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 526222006899 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 526222006900 active site 526222006901 phosphorylation site [posttranslational modification] 526222006902 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 A site; Region: RaiA; cd00552 526222006903 30S subunit binding site; other site 526222006904 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 526222006905 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 526222006906 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 526222006907 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 526222006908 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 526222006909 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 526222006910 Walker A/P-loop; other site 526222006911 ATP binding site [chemical binding]; other site 526222006912 Q-loop/lid; other site 526222006913 ABC transporter signature motif; other site 526222006914 Walker B; other site 526222006915 D-loop; other site 526222006916 H-loop/switch region; other site 526222006917 Bacterial SH3 domain; Region: SH3_3; cl02551 526222006918 OstA-like protein; Region: OstA; cl00844 526222006919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 526222006920 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 526222006921 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 526222006922 NeuB family; Region: NeuB; cl00496 526222006923 CTP synthetase; Validated; Region: pyrG; PRK05380 526222006924 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 526222006925 Catalytic site [active] 526222006926 active site 526222006927 UTP binding site [chemical binding]; other site 526222006928 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 526222006929 active site 526222006930 putative oxyanion hole; other site 526222006931 catalytic triad [active] 526222006932 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 526222006933 conserved cys residue [active] 526222006934 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 526222006935 nucleoside/Zn binding site; other site 526222006936 dimer interface [polypeptide binding]; other site 526222006937 catalytic motif [active] 526222006938 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 526222006939 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 526222006940 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 526222006941 ATP binding site [chemical binding]; other site 526222006942 putative Mg++ binding site [ion binding]; other site 526222006943 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 526222006944 nucleotide binding region [chemical binding]; other site 526222006945 ATP-binding site [chemical binding]; other site 526222006946 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 526222006947 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222006948 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222006949 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 526222006950 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 526222006951 dimer interface [polypeptide binding]; other site 526222006952 active site 526222006953 metal binding site [ion binding]; metal-binding site 526222006954 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 526222006955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222006956 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222006957 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 526222006958 active site residue [active] 526222006959 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 526222006960 PAS domain; Region: PAS_9; pfam13426 526222006961 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 526222006962 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 526222006963 Helix-turn-helix domains; Region: HTH; cl00088 526222006964 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222006965 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 526222006966 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 526222006967 4Fe-4S binding domain; Region: Fer4; cl02805 526222006968 4Fe-4S binding domain; Region: Fer4; cl02805 526222006969 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 526222006970 Cupin domain; Region: Cupin_2; cl09118 526222006971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222006972 conserved hypothetical protein; Region: TIGR02285 526222006973 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 526222006974 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 526222006975 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 526222006976 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 526222006977 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222006978 substrate binding pocket [chemical binding]; other site 526222006979 membrane-bound complex binding site; other site 526222006980 hinge residues; other site 526222006981 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 526222006982 intracellular protease, PfpI family; Region: PfpI; TIGR01382 526222006983 conserved cys residue [active] 526222006984 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222006985 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 526222006986 Walker A/P-loop; other site 526222006987 ATP binding site [chemical binding]; other site 526222006988 Q-loop/lid; other site 526222006989 ABC transporter signature motif; other site 526222006990 Walker B; other site 526222006991 D-loop; other site 526222006992 H-loop/switch region; other site 526222006993 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222006994 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222006995 dimer interface [polypeptide binding]; other site 526222006996 conserved gate region; other site 526222006997 putative PBP binding loops; other site 526222006998 ABC-ATPase subunit interface; other site 526222006999 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 526222007000 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 526222007001 substrate binding pocket [chemical binding]; other site 526222007002 membrane-bound complex binding site; other site 526222007003 hinge residues; other site 526222007004 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 526222007005 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 526222007006 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 526222007007 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 526222007008 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 526222007009 PAS domain; Region: PAS_9; pfam13426 526222007010 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007012 dimer interface [polypeptide binding]; other site 526222007013 putative CheW interface [polypeptide binding]; other site 526222007014 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 526222007015 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 526222007016 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 526222007017 active site 526222007018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 526222007019 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 526222007020 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 526222007021 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 526222007022 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 526222007023 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 526222007024 GIY-YIG motif/motif A; other site 526222007025 putative active site [active] 526222007026 putative metal binding site [ion binding]; other site 526222007027 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 526222007028 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 526222007029 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 526222007030 ABC transporter; Region: ABC_tran_2; pfam12848 526222007031 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 526222007032 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 526222007033 active site 526222007034 8-oxo-dGMP binding site [chemical binding]; other site 526222007035 nudix motif; other site 526222007036 metal binding site [ion binding]; metal-binding site 526222007037 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 526222007038 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 526222007039 FAD binding site [chemical binding]; other site 526222007040 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 526222007041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222007042 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 526222007043 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 526222007044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222007045 catalytic residue [active] 526222007046 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 526222007047 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 526222007048 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 526222007049 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 526222007050 intersubunit interface [polypeptide binding]; other site 526222007051 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 526222007052 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 526222007053 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 526222007054 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 526222007055 ABC-ATPase subunit interface; other site 526222007056 dimer interface [polypeptide binding]; other site 526222007057 putative PBP binding regions; other site 526222007058 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 526222007059 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 526222007060 active site 526222007061 C-terminal domain interface [polypeptide binding]; other site 526222007062 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 526222007063 active site 526222007064 N-terminal domain interface [polypeptide binding]; other site 526222007065 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 526222007066 MatE; Region: MatE; cl10513 526222007067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222007068 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 526222007069 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 526222007070 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 526222007071 Walker A/P-loop; other site 526222007072 ATP binding site [chemical binding]; other site 526222007073 Q-loop/lid; other site 526222007074 ABC transporter signature motif; other site 526222007075 Walker B; other site 526222007076 D-loop; other site 526222007077 H-loop/switch region; other site 526222007078 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 526222007079 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 526222007080 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 526222007081 Walker A/P-loop; other site 526222007082 ATP binding site [chemical binding]; other site 526222007083 Q-loop/lid; other site 526222007084 ABC transporter signature motif; other site 526222007085 Walker B; other site 526222007086 D-loop; other site 526222007087 H-loop/switch region; other site 526222007088 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 526222007089 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 526222007090 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 526222007091 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 526222007092 Low molecular weight phosphatase family; Region: LMWPc; cd00115 526222007093 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 526222007094 active site 526222007095 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222007096 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 526222007097 Ligand Binding Site [chemical binding]; other site 526222007098 GTPase RsgA; Reviewed; Region: PRK01889 526222007099 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 526222007100 GTPase/Zn-binding domain interface [polypeptide binding]; other site 526222007101 GTP/Mg2+ binding site [chemical binding]; other site 526222007102 G4 box; other site 526222007103 G5 box; other site 526222007104 G1 box; other site 526222007105 Switch I region; other site 526222007106 G2 box; other site 526222007107 G3 box; other site 526222007108 Switch II region; other site 526222007109 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 526222007110 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 526222007111 TIGR01777 family protein; Region: yfcH 526222007112 putative NAD(P) binding site [chemical binding]; other site 526222007113 putative active site [active] 526222007114 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 526222007115 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007116 substrate binding pocket [chemical binding]; other site 526222007117 membrane-bound complex binding site; other site 526222007118 hinge residues; other site 526222007119 sensory histidine kinase AtoS; Provisional; Region: PRK11360 526222007120 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 526222007121 dimer interface [polypeptide binding]; other site 526222007122 phosphorylation site [posttranslational modification] 526222007123 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 526222007124 ATP binding site [chemical binding]; other site 526222007125 Mg2+ binding site [ion binding]; other site 526222007126 G-X-G motif; other site 526222007127 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222007128 Helix-turn-helix domains; Region: HTH; cl00088 526222007129 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 526222007130 Ligand Binding Site [chemical binding]; other site 526222007131 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 526222007132 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 526222007133 Catalytic site [active] 526222007134 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 526222007135 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 526222007136 active site 526222007137 DNA binding site [nucleotide binding] 526222007138 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 526222007139 TPR repeat; Region: TPR_11; pfam13414 526222007140 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 526222007141 binding surface 526222007142 TPR motif; other site 526222007143 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 526222007144 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 526222007145 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222007146 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 526222007147 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 526222007148 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 526222007149 Helix-turn-helix domains; Region: HTH; cl00088 526222007150 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 526222007151 MatE; Region: MatE; cl10513 526222007152 MatE; Region: MatE; cl10513 526222007153 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 526222007154 Sulfatase; Region: Sulfatase; cl10460 526222007155 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 526222007156 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 526222007157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007158 Family description; Region: UvrD_C_2; cl15862 526222007159 thiamine monophosphate kinase; Provisional; Region: PRK05731 526222007160 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 526222007161 ATP binding site [chemical binding]; other site 526222007162 dimerization interface [polypeptide binding]; other site 526222007163 Haemolysin-III related; Region: HlyIII; cl03831 526222007164 ThiC family; Region: ThiC; cl08031 526222007165 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 526222007166 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222007167 Helix-turn-helix domains; Region: HTH; cl00088 526222007168 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 526222007169 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 526222007170 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 526222007171 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 526222007172 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 526222007173 Walker A/P-loop; other site 526222007174 ATP binding site [chemical binding]; other site 526222007175 Q-loop/lid; other site 526222007176 ABC transporter signature motif; other site 526222007177 Walker B; other site 526222007178 D-loop; other site 526222007179 H-loop/switch region; other site 526222007180 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 526222007181 ABC-2 type transporter; Region: ABC2_membrane; cl11417 526222007182 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222007183 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222007184 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl10251 526222007185 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 526222007186 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 526222007187 FecR protein; Region: FecR; pfam04773 526222007188 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222007189 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 526222007190 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 526222007191 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007192 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007193 dimer interface [polypeptide binding]; other site 526222007194 putative CheW interface [polypeptide binding]; other site 526222007195 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR_like; cd08242 526222007196 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 526222007197 putative NAD(P) binding site [chemical binding]; other site 526222007198 catalytic Zn binding site [ion binding]; other site 526222007199 structural Zn binding site [ion binding]; other site 526222007200 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 526222007201 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 526222007202 PAS domain; Region: PAS_9; pfam13426 526222007203 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007205 dimer interface [polypeptide binding]; other site 526222007206 putative CheW interface [polypeptide binding]; other site 526222007207 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 526222007208 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 526222007209 putative NADP binding site [chemical binding]; other site 526222007210 putative substrate binding site [chemical binding]; other site 526222007211 active site 526222007212 YfbU domain; Region: YfbU; cl01137 526222007213 Carbon starvation protein CstA; Region: CstA; pfam02554 526222007214 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 526222007215 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222007216 YCII-related domain; Region: YCII; cl00999 526222007217 Helix-turn-helix domains; Region: HTH; cl00088 526222007218 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 526222007219 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 526222007220 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 526222007221 NMT1-like family; Region: NMT1_2; cl15260 526222007222 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 526222007223 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 526222007224 PAS fold; Region: PAS_4; pfam08448 526222007225 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 526222007226 dimer interface [polypeptide binding]; other site 526222007227 phosphorylation site [posttranslational modification] 526222007228 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 526222007229 ATP binding site [chemical binding]; other site 526222007230 Mg2+ binding site [ion binding]; other site 526222007231 G-X-G motif; other site 526222007232 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222007233 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222007234 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 526222007235 TPR motif; other site 526222007236 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222007237 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 526222007238 binding surface 526222007239 TPR motif; other site 526222007240 Stage II sporulation protein; Region: SpoIID; pfam08486 526222007241 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 526222007242 Right handed beta helix region; Region: Beta_helix; pfam13229 526222007243 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 526222007244 AsmA-like C-terminal region; Region: AsmA_2; cl15864 526222007245 LPP20 lipoprotein; Region: LPP20; cl15824 526222007246 TPR repeat; Region: TPR_11; pfam13414 526222007247 S-layer homology domain; Region: SLH; pfam00395 526222007248 Protein of unknown function (DUF520); Region: DUF520; cl00723 526222007249 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 526222007250 anti sigma factor interaction site; other site 526222007251 regulatory phosphorylation site [posttranslational modification]; other site 526222007252 YCII-related domain; Region: YCII; cl00999 526222007253 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 526222007254 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 526222007255 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 526222007256 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 526222007257 octamerization interface [polypeptide binding]; other site 526222007258 diferric-oxygen binding site [ion binding]; other site 526222007259 Cache domain; Region: Cache_1; pfam02743 526222007260 GAF domain; Region: GAF_2; pfam13185 526222007261 GAF domain; Region: GAF; cl15785 526222007262 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222007263 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222007264 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; cl15357 526222007265 transmembrane helices; other site 526222007266 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 526222007267 homodimer interaction site [polypeptide binding]; other site 526222007268 cofactor binding site; other site 526222007269 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 526222007270 rRNA binding site [nucleotide binding]; other site 526222007271 predicted 30S ribosome binding site; other site 526222007272 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 526222007273 RNA/DNA binding site [nucleotide binding]; other site 526222007274 RRM dimerization site [polypeptide binding]; other site 526222007275 ketol-acid reductoisomerase; Provisional; Region: PRK05479 526222007276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222007277 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 526222007278 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 526222007279 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 526222007280 putative valine binding site [chemical binding]; other site 526222007281 dimer interface [polypeptide binding]; other site 526222007282 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 526222007283 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 526222007284 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 526222007285 PYR/PP interface [polypeptide binding]; other site 526222007286 dimer interface [polypeptide binding]; other site 526222007287 TPP binding site [chemical binding]; other site 526222007288 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 526222007289 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 526222007290 TPP-binding site [chemical binding]; other site 526222007291 dimer interface [polypeptide binding]; other site 526222007292 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 526222007293 DivIVA protein; Region: DivIVA; pfam05103 526222007294 DivIVA domain; Region: DivI1A_domain; TIGR03544 526222007295 YGGT family; Region: YGGT; cl00508 526222007296 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 526222007297 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 526222007298 active site 526222007299 motif I; other site 526222007300 motif II; other site 526222007301 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 526222007302 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 526222007303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007304 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 526222007305 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 526222007306 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 526222007307 active site 526222007308 (T/H)XGH motif; other site 526222007309 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; cl15754 526222007310 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 526222007311 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222007312 Beta-Casp domain; Region: Beta-Casp; cl12567 526222007313 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 526222007314 EamA-like transporter family; Region: EamA; cl01037 526222007315 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222007316 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 526222007317 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 526222007318 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 526222007319 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222007320 dimer interface [polypeptide binding]; other site 526222007321 conserved gate region; other site 526222007322 putative PBP binding loops; other site 526222007323 ABC-ATPase subunit interface; other site 526222007324 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 526222007325 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007326 Walker A/P-loop; other site 526222007327 ATP binding site [chemical binding]; other site 526222007328 Q-loop/lid; other site 526222007329 ABC transporter signature motif; other site 526222007330 Walker B; other site 526222007331 D-loop; other site 526222007332 H-loop/switch region; other site 526222007333 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 526222007334 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 526222007335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007336 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 526222007337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007339 Switch II region; other site 526222007340 G4 box; other site 526222007341 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 526222007342 Chain length determinant protein; Region: Wzz; cl15801 526222007343 Chain length determinant protein; Region: Wzz; cl15801 526222007344 Chain length determinant protein; Region: Wzz; cl15801 526222007345 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 526222007346 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 526222007347 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 526222007348 SLBB domain; Region: SLBB; pfam10531 526222007349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222007350 Bacterial sugar transferase; Region: Bac_transf; cl00939 526222007351 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 526222007352 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 526222007353 TPR motif; other site 526222007354 binding surface 526222007355 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 526222007356 TPR motif; other site 526222007357 binding surface 526222007358 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 526222007359 TPR motif; other site 526222007360 binding surface 526222007361 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 526222007362 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 526222007363 binding surface 526222007364 TPR motif; other site 526222007365 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 526222007366 TPR motif; other site 526222007367 binding surface 526222007368 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 526222007369 binding surface 526222007370 TPR motif; other site 526222007371 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 526222007372 binding surface 526222007373 TPR motif; other site 526222007374 TPR repeat; Region: TPR_11; pfam13414 526222007375 TPR repeat; Region: TPR_11; pfam13414 526222007376 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 526222007377 binding surface 526222007378 TPR motif; other site 526222007379 exosortase D, VPLPA-CTERM-specific; Region: exosort_VPLPA; TIGR04152 526222007380 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 526222007381 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 526222007382 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222007383 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 526222007384 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 526222007385 FOG: CBS domain [General function prediction only]; Region: COG0517 526222007386 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 526222007387 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222007388 metal binding site [ion binding]; metal-binding site 526222007389 active site 526222007390 I-site; other site 526222007391 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 526222007392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007393 Family description; Region: UvrD_C_2; cl15862 526222007394 recombination protein RecR; Reviewed; Region: recR; PRK00076 526222007395 RecR protein; Region: RecR; pfam02132 526222007396 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 526222007397 active site 526222007398 metal binding site [ion binding]; metal-binding site 526222007399 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 526222007400 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 526222007401 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 526222007402 Walker A motif; other site 526222007403 ATP binding site [chemical binding]; other site 526222007404 Walker B motif; other site 526222007405 arginine finger; other site 526222007406 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 526222007407 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14959 526222007408 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 526222007409 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 526222007410 homodimer interface [polypeptide binding]; other site 526222007411 substrate-cofactor binding pocket; other site 526222007412 catalytic residue [active] 526222007413 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 526222007414 aminotransferase; Validated; Region: PRK08175 526222007415 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 526222007416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222007417 homodimer interface [polypeptide binding]; other site 526222007418 catalytic residue [active] 526222007419 homoserine dehydrogenase; Provisional; Region: PRK06349 526222007420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222007421 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 526222007422 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 526222007423 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 526222007424 Sulfatase; Region: Sulfatase; cl10460 526222007425 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 526222007426 active site 526222007427 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 526222007428 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 526222007429 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 526222007430 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222007431 Helix-turn-helix domains; Region: HTH; cl00088 526222007432 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222007433 heme-binding residues [chemical binding]; other site 526222007434 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 526222007435 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 526222007436 Walker A/P-loop; other site 526222007437 ATP binding site [chemical binding]; other site 526222007438 Q-loop/lid; other site 526222007439 ABC transporter signature motif; other site 526222007440 Walker B; other site 526222007441 D-loop; other site 526222007442 H-loop/switch region; other site 526222007443 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 526222007444 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 526222007445 TM-ABC transporter signature motif; other site 526222007446 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 526222007447 TM-ABC transporter signature motif; other site 526222007448 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 526222007449 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 526222007450 putative ligand binding site [chemical binding]; other site 526222007451 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 526222007452 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222007453 active site 526222007454 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222007455 metal binding site [ion binding]; metal-binding site 526222007456 active site 526222007457 I-site; other site 526222007458 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 526222007459 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 526222007460 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222007461 Zn2+ binding site [ion binding]; other site 526222007462 Mg2+ binding site [ion binding]; other site 526222007463 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 526222007464 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222007465 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 526222007466 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 526222007467 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007468 substrate binding pocket [chemical binding]; other site 526222007469 membrane-bound complex binding site; other site 526222007470 hinge residues; other site 526222007471 mercuric reductase; Validated; Region: PRK06370 526222007472 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222007473 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222007474 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 526222007475 glucokinase, proteobacterial type; Region: glk; TIGR00749 526222007476 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 526222007477 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222007478 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222007479 ligand binding site [chemical binding]; other site 526222007480 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222007481 Maf-like protein; Region: Maf; pfam02545 526222007482 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 526222007483 active site 526222007484 dimer interface [polypeptide binding]; other site 526222007485 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 526222007486 AMP-binding enzyme; Region: AMP-binding; cl15778 526222007487 Helix-turn-helix domain; Region: HTH_18; pfam12833 526222007488 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 526222007489 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 526222007490 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222007491 Coenzyme A binding pocket [chemical binding]; other site 526222007492 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 526222007493 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 526222007494 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 526222007495 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 526222007496 LysE type translocator; Region: LysE; cl00565 526222007497 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 526222007498 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007499 substrate binding pocket [chemical binding]; other site 526222007500 membrane-bound complex binding site; other site 526222007501 hinge residues; other site 526222007502 Putative cyclase; Region: Cyclase; cl00814 526222007503 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 526222007504 tetramer interfaces [polypeptide binding]; other site 526222007505 binuclear metal-binding site [ion binding]; other site 526222007506 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222007507 ligand binding site [chemical binding]; other site 526222007508 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 526222007509 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 526222007510 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 526222007511 Gram-negative bacterial tonB protein; Region: TonB; cl10048 526222007512 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 526222007513 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222007514 NAD-dependent deacetylase; Provisional; Region: PRK00481 526222007515 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 526222007516 hypothetical protein; Provisional; Region: PRK06361 526222007517 Bifunctional nuclease; Region: DNase-RNase; cl00553 526222007518 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 526222007519 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 526222007520 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 526222007521 FeS/SAM binding site; other site 526222007522 TRAM domain; Region: TRAM; cl01282 526222007523 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 526222007524 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 526222007525 Sulfatase; Region: Sulfatase; cl10460 526222007526 Oligomerisation domain; Region: Oligomerisation; cl00519 526222007527 AMP-binding enzyme; Region: AMP-binding; cl15778 526222007528 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 526222007529 ACT domain-containing protein [General function prediction only]; Region: COG4747 526222007530 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 526222007531 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 526222007532 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 526222007533 hypothetical protein; Reviewed; Region: PRK09588 526222007534 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 526222007535 K+ potassium transporter; Region: K_trans; cl15781 526222007536 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 526222007537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007538 AAA domain; Region: AAA_33; pfam13671 526222007539 active site 526222007540 Phosphotransferase enzyme family; Region: APH; pfam01636 526222007541 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222007542 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 526222007543 substrate binding site [chemical binding]; other site 526222007544 ATP binding site [chemical binding]; other site 526222007545 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 526222007546 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 526222007547 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 526222007548 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 526222007549 minor groove reading motif; other site 526222007550 helix-hairpin-helix signature motif; other site 526222007551 substrate binding pocket [chemical binding]; other site 526222007552 active site 526222007553 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 526222007554 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 526222007555 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 526222007556 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 526222007557 putative active site [active] 526222007558 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 526222007559 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 526222007560 P-loop; other site 526222007561 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007562 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 526222007563 ACS interaction site; other site 526222007564 CODH interaction site; other site 526222007565 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 526222007566 cubane metal cluster (B-cluster) [ion binding]; other site 526222007567 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 526222007568 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222007569 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 526222007570 ligand binding site [chemical binding]; other site 526222007571 flexible hinge region; other site 526222007572 Helix-turn-helix domains; Region: HTH; cl00088 526222007573 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 526222007574 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 526222007575 AsmA-like C-terminal region; Region: AsmA_2; cl15864 526222007576 Protein of unknown function DUF89; Region: DUF89; cl15397 526222007577 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 526222007578 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 526222007579 P loop nucleotide binding; other site 526222007580 switch II; other site 526222007581 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 526222007582 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 526222007583 P loop nucleotide binding; other site 526222007584 switch II; other site 526222007585 CGGC domain; Region: CGGC; cl02356 526222007586 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 526222007587 conserved hypothetical protein; Region: TIGR02285 526222007588 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007589 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 526222007590 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 526222007591 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 526222007592 active site 526222007593 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 526222007594 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 526222007595 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 526222007596 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 526222007597 trimer interface [polypeptide binding]; other site 526222007598 active site 526222007599 UDP-GlcNAc binding site [chemical binding]; other site 526222007600 lipid binding site [chemical binding]; lipid-binding site 526222007601 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 526222007602 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 526222007603 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 526222007604 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 526222007605 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 526222007606 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 526222007607 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 526222007608 Surface antigen; Region: Bac_surface_Ag; cl03097 526222007609 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 526222007610 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 526222007611 Walker A/P-loop; other site 526222007612 ATP binding site [chemical binding]; other site 526222007613 Q-loop/lid; other site 526222007614 ABC transporter signature motif; other site 526222007615 Walker B; other site 526222007616 D-loop; other site 526222007617 H-loop/switch region; other site 526222007618 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 526222007619 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222007620 FtsX-like permease family; Region: FtsX; cl15850 526222007621 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 526222007622 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 526222007623 dimer interface [polypeptide binding]; other site 526222007624 putative anticodon binding site; other site 526222007625 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 526222007626 motif 1; other site 526222007627 active site 526222007628 motif 2; other site 526222007629 motif 3; other site 526222007630 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222007631 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 526222007632 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; cl09155 526222007633 domain interfaces; other site 526222007634 active site 526222007635 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 526222007636 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 526222007637 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 526222007638 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 526222007639 PAS domain S-box; Region: sensory_box; TIGR00229 526222007640 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 526222007641 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222007642 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 526222007643 putative active site [active] 526222007644 heme pocket [chemical binding]; other site 526222007645 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 526222007646 dimer interface [polypeptide binding]; other site 526222007647 phosphorylation site [posttranslational modification] 526222007648 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 526222007649 ATP binding site [chemical binding]; other site 526222007650 Mg2+ binding site [ion binding]; other site 526222007651 G-X-G motif; other site 526222007652 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 526222007653 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222007654 putative active site [active] 526222007655 metal binding site [ion binding]; metal-binding site 526222007656 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 526222007657 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 526222007658 Helix-turn-helix domains; Region: HTH; cl00088 526222007659 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 526222007660 putative dimerization interface [polypeptide binding]; other site 526222007661 LysE type translocator; Region: LysE; cl00565 526222007662 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 526222007663 AzlC protein; Region: AzlC; cl00570 526222007664 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 526222007665 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 526222007666 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 526222007667 regulatory protein interface [polypeptide binding]; other site 526222007668 active site 526222007669 regulatory phosphorylation site [posttranslational modification]; other site 526222007670 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 526222007671 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 526222007672 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 526222007673 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; cl09155 526222007674 DAK2 domain; Region: Dak2; cl03685 526222007675 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 526222007676 Dak1 domain; Region: Dak1; pfam02733 526222007677 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 526222007678 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 526222007679 DNA binding site [nucleotide binding] 526222007680 domain linker motif; other site 526222007681 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 526222007682 dimerization interface [polypeptide binding]; other site 526222007683 ligand binding site [chemical binding]; other site 526222007684 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 526222007685 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 526222007686 substrate binding site [chemical binding]; other site 526222007687 dimer interface [polypeptide binding]; other site 526222007688 ATP binding site [chemical binding]; other site 526222007689 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 526222007690 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 526222007691 ligand binding site [chemical binding]; other site 526222007692 dimerization interface [polypeptide binding]; other site 526222007693 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 526222007694 TM-ABC transporter signature motif; other site 526222007695 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 526222007696 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 526222007697 Walker A/P-loop; other site 526222007698 ATP binding site [chemical binding]; other site 526222007699 Q-loop/lid; other site 526222007700 ABC transporter signature motif; other site 526222007701 Walker B; other site 526222007702 D-loop; other site 526222007703 H-loop/switch region; other site 526222007704 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 526222007705 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 526222007706 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 526222007707 Ligand binding site; other site 526222007708 Putative Catalytic site; other site 526222007709 DXD motif; other site 526222007710 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 526222007711 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 526222007712 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 526222007713 Walker A motif; other site 526222007714 ATP binding site [chemical binding]; other site 526222007715 Walker B motif; other site 526222007716 arginine finger; other site 526222007717 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 526222007718 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 526222007719 Domain of unknown function DUF; Region: DUF204; pfam02659 526222007720 Domain of unknown function DUF; Region: DUF204; pfam02659 526222007721 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 526222007722 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 526222007723 putative binding surface; other site 526222007724 active site 526222007725 Cache domain; Region: Cache_2; cl07034 526222007726 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 526222007727 dimerization interface [polypeptide binding]; other site 526222007728 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007729 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007730 dimer interface [polypeptide binding]; other site 526222007731 putative CheW interface [polypeptide binding]; other site 526222007732 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 526222007733 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 526222007734 Cache domain; Region: Cache_2; cl07034 526222007735 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 526222007736 dimerization interface [polypeptide binding]; other site 526222007737 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007738 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007739 dimer interface [polypeptide binding]; other site 526222007740 putative CheW interface [polypeptide binding]; other site 526222007741 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 526222007742 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 526222007743 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222007744 Cysteine-rich domain; Region: CCG; pfam02754 526222007745 Cysteine-rich domain; Region: CCG; pfam02754 526222007746 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 526222007747 Acetokinase family; Region: Acetate_kinase; cl01029 526222007748 propionate/acetate kinase; Provisional; Region: PRK12379 526222007749 phosphate acetyltransferase; Reviewed; Region: PRK05632 526222007750 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007751 DRTGG domain; Region: DRTGG; cl12147 526222007752 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 526222007753 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222007754 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 526222007755 Cysteine-rich domain; Region: CCG; pfam02754 526222007756 Cysteine-rich domain; Region: CCG; pfam02754 526222007757 FAD binding domain; Region: FAD_binding_4; pfam01565 526222007758 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 526222007759 L-lactate permease; Region: Lactate_perm; cl00701 526222007760 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222007761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222007762 active site 526222007763 phosphorylation site [posttranslational modification] 526222007764 intermolecular recognition site; other site 526222007765 dimerization interface [polypeptide binding]; other site 526222007766 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 526222007767 Walker A motif; other site 526222007768 ATP binding site [chemical binding]; other site 526222007769 Walker B motif; other site 526222007770 arginine finger; other site 526222007771 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222007772 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222007773 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 526222007774 putative active site [active] 526222007775 heme pocket [chemical binding]; other site 526222007776 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 526222007777 dimer interface [polypeptide binding]; other site 526222007778 phosphorylation site [posttranslational modification] 526222007779 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 526222007780 ATP binding site [chemical binding]; other site 526222007781 Mg2+ binding site [ion binding]; other site 526222007782 G-X-G motif; other site 526222007783 Response regulator receiver domain; Region: Response_reg; pfam00072 526222007784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222007785 active site 526222007786 phosphorylation site [posttranslational modification] 526222007787 intermolecular recognition site; other site 526222007788 dimerization interface [polypeptide binding]; other site 526222007789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 526222007790 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 526222007791 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 526222007792 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 526222007793 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 526222007794 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 526222007795 metal binding site [ion binding]; metal-binding site 526222007796 putative dimer interface [polypeptide binding]; other site 526222007797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222007798 Response regulator receiver domain; Region: Response_reg; pfam00072 526222007799 active site 526222007800 phosphorylation site [posttranslational modification] 526222007801 intermolecular recognition site; other site 526222007802 dimerization interface [polypeptide binding]; other site 526222007803 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 526222007804 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222007805 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222007806 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 526222007807 active site residue [active] 526222007808 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 526222007809 trimer interface [polypeptide binding]; other site 526222007810 dimer interface [polypeptide binding]; other site 526222007811 putative active site [active] 526222007812 chaperone protein DnaJ; Provisional; Region: PRK14301 526222007813 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 526222007814 HSP70 interaction site [polypeptide binding]; other site 526222007815 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 526222007816 substrate binding site [polypeptide binding]; other site 526222007817 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 526222007818 Zn binding sites [ion binding]; other site 526222007819 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 526222007820 dimer interface [polypeptide binding]; other site 526222007821 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 526222007822 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 526222007823 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 526222007824 Ligand Binding Site [chemical binding]; other site 526222007825 Peptidase family M23; Region: Peptidase_M23; pfam01551 526222007826 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 526222007827 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 526222007828 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 526222007829 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 526222007830 FHIPEP family; Region: FHIPEP; pfam00771 526222007831 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 526222007832 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 526222007833 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 526222007834 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 526222007835 P-loop; other site 526222007836 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 526222007837 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222007838 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 526222007839 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 526222007840 DNA binding residues [nucleotide binding] 526222007841 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 526222007842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222007843 active site 526222007844 phosphorylation site [posttranslational modification] 526222007845 intermolecular recognition site; other site 526222007846 dimerization interface [polypeptide binding]; other site 526222007847 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 526222007848 Cache domain; Region: Cache_2; cl07034 526222007849 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 526222007850 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 526222007851 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007852 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007853 dimer interface [polypeptide binding]; other site 526222007854 putative CheW interface [polypeptide binding]; other site 526222007855 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 526222007856 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 526222007857 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 526222007858 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 526222007859 S-adenosylmethionine binding site [chemical binding]; other site 526222007860 peptide chain release factor 1; Validated; Region: prfA; PRK00591 526222007861 RF-1 domain; Region: RF-1; cl02875 526222007862 RF-1 domain; Region: RF-1; cl02875 526222007863 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 526222007864 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 526222007865 DsrC like protein; Region: DsrC; cl01101 526222007866 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 526222007867 YcaO-like family; Region: YcaO; pfam02624 526222007868 Ferredoxin-dependent bilin reductase; Region: Fe_bilin_red; cl07930 526222007869 TPR repeat; Region: TPR_11; pfam13414 526222007870 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 526222007871 binding surface 526222007872 TPR motif; other site 526222007873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222007874 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 526222007875 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 526222007876 Domain of unknown function (DUF814); Region: DUF814; pfam05670 526222007877 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 526222007878 TPR motif; other site 526222007879 binding surface 526222007880 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 526222007881 MoaE homodimer interface [polypeptide binding]; other site 526222007882 MoaD interaction [polypeptide binding]; other site 526222007883 active site residues [active] 526222007884 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 526222007885 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 526222007886 active site 526222007887 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222007888 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 526222007889 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 526222007890 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 catalyze...; Region: LT_GEWL; cd00254 526222007891 N-acetyl-D-glucosamine binding site [chemical binding]; other site 526222007892 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 526222007893 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 526222007894 MPT binding site; other site 526222007895 trimer interface [polypeptide binding]; other site 526222007896 Protein of unknown function (DUF1614); Region: DUF1614; cl15407 526222007897 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 526222007898 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 526222007899 substrate binding site; other site 526222007900 tetramer interface; other site 526222007901 PilZ domain; Region: PilZ; cl01260 526222007902 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 526222007903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222007904 Response regulator receiver domain; Region: Response_reg; pfam00072 526222007905 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222007906 active site 526222007907 phosphorylation site [posttranslational modification] 526222007908 intermolecular recognition site; other site 526222007909 dimerization interface [polypeptide binding]; other site 526222007910 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 526222007911 active site 526222007912 catalytic triad [active] 526222007913 oxyanion hole [active] 526222007914 switch loop; other site 526222007915 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 526222007916 active site 526222007917 nucleophile elbow; other site 526222007918 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 526222007919 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222007920 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 526222007921 YcaO-like family; Region: YcaO; pfam02624 526222007922 Uncharacterized conserved protein [Function unknown]; Region: COG1944; cl09146 526222007923 Cache domain; Region: Cache_1; pfam02743 526222007924 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 526222007925 dimerization interface [polypeptide binding]; other site 526222007926 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 526222007927 PAS domain; Region: PAS_9; pfam13426 526222007928 putative active site [active] 526222007929 heme pocket [chemical binding]; other site 526222007930 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222007931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222007932 dimer interface [polypeptide binding]; other site 526222007933 putative CheW interface [polypeptide binding]; other site 526222007934 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 526222007935 PAS domain; Region: PAS_9; pfam13426 526222007936 putative active site [active] 526222007937 heme pocket [chemical binding]; other site 526222007938 PAS fold; Region: PAS_4; pfam08448 526222007939 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 526222007940 putative active site [active] 526222007941 heme pocket [chemical binding]; other site 526222007942 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 526222007943 DNA binding residues [nucleotide binding] 526222007944 dimerization interface [polypeptide binding]; other site 526222007945 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 526222007946 dimer interface [polypeptide binding]; other site 526222007947 phosphorylation site [posttranslational modification] 526222007948 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 526222007949 PAS domain; Region: PAS_9; pfam13426 526222007950 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 526222007951 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 526222007952 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 526222007953 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 526222007954 Protein of unknown function (DUF997); Region: DUF997; cl01614 526222007955 Sodium:solute symporter family; Region: SSF; cl00456 526222007956 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 526222007957 PhoU domain; Region: PhoU; pfam01895 526222007958 PhoU domain; Region: PhoU; pfam01895 526222007959 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 526222007960 thiS-thiF/thiG interaction site; other site 526222007961 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 526222007962 ThiS interaction site; other site 526222007963 putative active site [active] 526222007964 tetramer interface [polypeptide binding]; other site 526222007965 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 526222007966 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 526222007967 FeS/SAM binding site; other site 526222007968 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 526222007969 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 526222007970 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 526222007971 putative ATP binding site [chemical binding]; other site 526222007972 putative substrate interface [chemical binding]; other site 526222007973 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 526222007974 active site 526222007975 thiamine phosphate binding site [chemical binding]; other site 526222007976 pyrophosphate binding site [ion binding]; other site 526222007977 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 526222007978 S-adenosylmethionine binding site [chemical binding]; other site 526222007979 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 526222007980 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 526222007981 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 526222007982 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 526222007983 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 526222007984 [4Fe-4S] binding site [ion binding]; other site 526222007985 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 526222007986 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 526222007987 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 526222007988 molybdopterin cofactor binding site; other site 526222007989 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222007990 AAA domain; Region: AAA_33; pfam13671 526222007991 OsmC-like protein; Region: OsmC; cl00767 526222007992 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 526222007993 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 526222007994 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 526222007995 dimer interface [polypeptide binding]; other site 526222007996 PYR/PP interface [polypeptide binding]; other site 526222007997 TPP binding site [chemical binding]; other site 526222007998 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 526222007999 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 526222008000 TPP-binding site [chemical binding]; other site 526222008001 dimer interface [polypeptide binding]; other site 526222008002 Helix-turn-helix domains; Region: HTH; cl00088 526222008003 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 526222008004 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 526222008005 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 526222008006 putative MPT binding site; other site 526222008007 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222008008 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 526222008009 Helix-turn-helix domains; Region: HTH; cl00088 526222008010 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 526222008011 dimerization interface [polypeptide binding]; other site 526222008012 substrate binding pocket [chemical binding]; other site 526222008013 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 526222008014 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 526222008015 NMT1-like family; Region: NMT1_2; cl15260 526222008016 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 526222008017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222008018 dimer interface [polypeptide binding]; other site 526222008019 conserved gate region; other site 526222008020 putative PBP binding loops; other site 526222008021 ABC-ATPase subunit interface; other site 526222008022 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 526222008023 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 526222008024 Walker A/P-loop; other site 526222008025 ATP binding site [chemical binding]; other site 526222008026 Q-loop/lid; other site 526222008027 ABC transporter signature motif; other site 526222008028 Walker B; other site 526222008029 D-loop; other site 526222008030 H-loop/switch region; other site 526222008031 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 526222008032 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 526222008033 AMP-binding enzyme; Region: AMP-binding; cl15778 526222008034 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 526222008035 active site 526222008036 catalytic residues [active] 526222008037 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 526222008038 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 526222008039 Cache domain; Region: Cache_1; pfam02743 526222008040 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 526222008041 dimer interface [polypeptide binding]; other site 526222008042 phosphorylation site [posttranslational modification] 526222008043 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 526222008044 ATP binding site [chemical binding]; other site 526222008045 Mg2+ binding site [ion binding]; other site 526222008046 G-X-G motif; other site 526222008047 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222008048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008049 active site 526222008050 phosphorylation site [posttranslational modification] 526222008051 intermolecular recognition site; other site 526222008052 dimerization interface [polypeptide binding]; other site 526222008053 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 526222008054 non-heme iron binding site [ion binding]; other site 526222008055 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 526222008056 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222008057 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 526222008058 active site residue [active] 526222008059 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 526222008060 active site residue [active] 526222008061 HDOD domain; Region: HDOD; pfam08668 526222008062 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222008063 HDOD domain; Region: HDOD; pfam08668 526222008064 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222008065 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222008066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008067 NAD(P) binding site [chemical binding]; other site 526222008068 active site 526222008069 Predicted membrane protein [Function unknown]; Region: COG4267 526222008070 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 526222008071 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222008072 HEAT repeats; Region: HEAT_2; pfam13646 526222008073 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 526222008074 TPR motif; other site 526222008075 binding surface 526222008076 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 526222008077 GAF domain; Region: GAF_2; pfam13185 526222008078 GAF domain; Region: GAF; cl15785 526222008079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222008080 active site 526222008081 I-site; other site 526222008082 metal binding site [ion binding]; metal-binding site 526222008083 Sporulation related domain; Region: SPOR; cl10051 526222008084 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 526222008085 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 526222008086 binding surface 526222008087 TPR motif; other site 526222008088 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 526222008089 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 526222008090 TPR motif; other site 526222008091 binding surface 526222008092 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 526222008093 binding surface 526222008094 TPR motif; other site 526222008095 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 526222008096 TPR motif; other site 526222008097 binding surface 526222008098 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 526222008099 putative active site [active] 526222008100 TM1410 hypothetical-related protein; Region: DUF297; cl00997 526222008101 TolB amino-terminal domain; Region: TolB_N; cl00639 526222008102 TM1410 hypothetical-related protein; Region: DUF297; cl00997 526222008103 High-affinity nickel-transport protein; Region: NicO; cl00964 526222008104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222008105 Helix-turn-helix domains; Region: HTH; cl00088 526222008106 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 526222008107 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222008108 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 526222008109 DctM-like transporters; Region: DctM; pfam06808 526222008110 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 526222008111 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; cl15357 526222008112 transmembrane helices; other site 526222008113 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 526222008114 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; cl15357 526222008115 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 526222008116 Predicted membrane protein [Function unknown]; Region: COG1289 526222008117 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 526222008118 Family of unknown function (DUF500); Region: DUF500; cl01109 526222008119 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222008120 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222008121 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 526222008122 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 526222008123 PQQ-like domain; Region: PQQ_2; pfam13360 526222008124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222008125 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222008126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222008127 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 526222008128 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 526222008129 putative dimer interface [polypeptide binding]; other site 526222008130 putative anticodon binding site; other site 526222008131 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 526222008132 homodimer interface [polypeptide binding]; other site 526222008133 motif 1; other site 526222008134 motif 2; other site 526222008135 active site 526222008136 motif 3; other site 526222008137 Rubrerythrin [Energy production and conversion]; Region: COG1592 526222008138 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 526222008139 binuclear metal center [ion binding]; other site 526222008140 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 526222008141 iron binding site [ion binding]; other site 526222008142 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 526222008143 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 526222008144 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 526222008145 P loop; other site 526222008146 GTP binding site [chemical binding]; other site 526222008147 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 526222008148 active site 526222008149 EamA-like transporter family; Region: EamA; cl01037 526222008150 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222008151 EamA-like transporter family; Region: EamA; cl01037 526222008152 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 526222008153 Family description; Region: UvrD_C_2; cl15862 526222008154 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 526222008155 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 526222008156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008157 hydroxyglutarate oxidase; Provisional; Region: PRK11728 526222008158 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 526222008159 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 526222008160 FMN binding site [chemical binding]; other site 526222008161 substrate binding site [chemical binding]; other site 526222008162 putative catalytic residue [active] 526222008163 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 526222008164 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 526222008165 Int/Topo IB signature motif; other site 526222008166 active site 526222008167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008168 active site 526222008169 phosphorylation site [posttranslational modification] 526222008170 intermolecular recognition site; other site 526222008171 dimerization interface [polypeptide binding]; other site 526222008172 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222008173 metal binding site [ion binding]; metal-binding site 526222008174 active site 526222008175 I-site; other site 526222008176 HDOD domain; Region: HDOD; pfam08668 526222008177 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222008178 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 526222008179 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 526222008180 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 526222008181 Tetratricopeptide repeat; Region: TPR_6; pfam13174 526222008182 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 526222008183 putative binding surface; other site 526222008184 active site 526222008185 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 526222008186 putative binding surface; other site 526222008187 active site 526222008188 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 526222008189 putative binding surface; other site 526222008190 active site 526222008191 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 526222008192 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 526222008193 ATP binding site [chemical binding]; other site 526222008194 Mg2+ binding site [ion binding]; other site 526222008195 G-X-G motif; other site 526222008196 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 526222008197 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008198 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008199 active site 526222008200 phosphorylation site [posttranslational modification] 526222008201 intermolecular recognition site; other site 526222008202 dimerization interface [polypeptide binding]; other site 526222008203 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 526222008204 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 526222008205 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 526222008206 P-loop; other site 526222008207 Magnesium ion binding site [ion binding]; other site 526222008208 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 526222008209 Magnesium ion binding site [ion binding]; other site 526222008210 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 526222008211 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 526222008212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008213 HEAT repeats; Region: HEAT_2; pfam13646 526222008214 HEAT repeats; Region: HEAT_2; pfam13646 526222008215 HEAT repeats; Region: HEAT_2; pfam13646 526222008216 HEAT repeats; Region: HEAT_2; pfam13646 526222008217 HEAT repeats; Region: HEAT_2; pfam13646 526222008218 HEAT repeats; Region: HEAT_2; pfam13646 526222008219 HEAT repeats; Region: HEAT_2; pfam13646 526222008220 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 526222008221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008222 active site 526222008223 phosphorylation site [posttranslational modification] 526222008224 intermolecular recognition site; other site 526222008225 CheB methylesterase; Region: CheB_methylest; pfam01339 526222008226 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 526222008227 GIY-YIG motif/motif A; other site 526222008228 putative active site [active] 526222008229 putative metal binding site [ion binding]; other site 526222008230 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 526222008231 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 526222008232 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 526222008233 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 526222008234 ATP binding site [chemical binding]; other site 526222008235 putative Mg++ binding site [ion binding]; other site 526222008236 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 526222008237 FRG domain; Region: FRG; cl07460 526222008238 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 526222008239 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 526222008240 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222008241 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 526222008242 HsdM N-terminal domain; Region: HsdM_N; pfam12161 526222008243 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 526222008244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008245 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 526222008246 DNA binding site [nucleotide binding] 526222008247 Int/Topo IB signature motif; other site 526222008248 active site 526222008249 catalytic residues [active] 526222008250 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 526222008251 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008253 active site 526222008254 phosphorylation site [posttranslational modification] 526222008255 intermolecular recognition site; other site 526222008256 dimerization interface [polypeptide binding]; other site 526222008257 sensory histidine kinase AtoS; Provisional; Region: PRK11360 526222008258 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 526222008259 ATP binding site [chemical binding]; other site 526222008260 Mg2+ binding site [ion binding]; other site 526222008261 G-X-G motif; other site 526222008262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222008263 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 526222008264 ATP binding site [chemical binding]; other site 526222008265 Mg2+ binding site [ion binding]; other site 526222008266 G-X-G motif; other site 526222008267 Helix-turn-helix domains; Region: HTH; cl00088 526222008268 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222008269 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 526222008270 DNA binding site [nucleotide binding] 526222008271 Int/Topo IB signature motif; other site 526222008272 active site 526222008273 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 526222008274 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 526222008275 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 526222008276 intracellular protease, PfpI family; Region: PfpI; TIGR01382 526222008277 proposed catalytic triad [active] 526222008278 conserved cys residue [active] 526222008279 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 526222008280 active site residue [active] 526222008281 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222008282 Helix-turn-helix domains; Region: HTH; cl00088 526222008283 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222008284 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 526222008285 Walker A/P-loop; other site 526222008286 ATP binding site [chemical binding]; other site 526222008287 Q-loop/lid; other site 526222008288 ABC transporter signature motif; other site 526222008289 Walker B; other site 526222008290 D-loop; other site 526222008291 H-loop/switch region; other site 526222008292 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 526222008293 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222008294 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222008295 dimer interface [polypeptide binding]; other site 526222008296 conserved gate region; other site 526222008297 putative PBP binding loops; other site 526222008298 ABC-ATPase subunit interface; other site 526222008299 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222008300 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 526222008301 substrate binding pocket [chemical binding]; other site 526222008302 membrane-bound complex binding site; other site 526222008303 hinge residues; other site 526222008304 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 526222008305 AAA domain; Region: AAA_32; pfam13654 526222008306 ATP-dependent protease Lon; Provisional; Region: PRK13765 526222008307 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 526222008308 Cache domain; Region: Cache_1; pfam02743 526222008309 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 526222008310 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008311 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008312 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008313 dimer interface [polypeptide binding]; other site 526222008314 putative CheW interface [polypeptide binding]; other site 526222008315 OpgC protein; Region: OpgC_C; cl00792 526222008316 Cache domain; Region: Cache_1; pfam02743 526222008317 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 526222008318 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008320 dimer interface [polypeptide binding]; other site 526222008321 putative CheW interface [polypeptide binding]; other site 526222008322 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 526222008323 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 526222008324 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 526222008325 FeS/SAM binding site; other site 526222008326 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 526222008327 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 526222008328 TPR motif; other site 526222008329 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 526222008330 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 526222008331 Protein export membrane protein; Region: SecD_SecF; cl14618 526222008332 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 526222008333 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 526222008334 inhibitor-cofactor binding pocket; inhibition site 526222008335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222008336 catalytic residue [active] 526222008337 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 526222008338 LytB protein; Region: LYTB; cl00507 526222008339 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222008340 Protein of unknown function DUF72; Region: DUF72; cl00777 526222008341 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222008342 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 526222008343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 526222008344 Helix-turn-helix domains; Region: HTH; cl00088 526222008345 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 526222008346 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 526222008347 catalytic triad [active] 526222008348 conserved cis-peptide bond; other site 526222008349 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 526222008350 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222008351 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 526222008352 synthetase active site [active] 526222008353 NTP binding site [chemical binding]; other site 526222008354 metal binding site [ion binding]; metal-binding site 526222008355 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 526222008356 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 526222008357 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 526222008358 peptide binding site [polypeptide binding]; other site 526222008359 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 526222008360 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 526222008361 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 526222008362 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 526222008363 ATP binding site [chemical binding]; other site 526222008364 putative Mg++ binding site [ion binding]; other site 526222008365 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 526222008366 nucleotide binding region [chemical binding]; other site 526222008367 ATP-binding site [chemical binding]; other site 526222008368 PilZ domain; Region: PilZ; cl01260 526222008369 PilZ domain; Region: PilZ; cl01260 526222008370 Flavin Reductases; Region: FlaRed; cl00801 526222008371 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 526222008372 ZIP Zinc transporter; Region: Zip; pfam02535 526222008373 putative cation:proton antiport protein; Provisional; Region: PRK10669 526222008374 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 526222008375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008376 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; cl15357 526222008377 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 526222008378 Cache domain; Region: Cache_1; pfam02743 526222008379 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 526222008380 PAS fold; Region: PAS_4; pfam08448 526222008381 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008382 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008383 dimer interface [polypeptide binding]; other site 526222008384 putative CheW interface [polypeptide binding]; other site 526222008385 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 526222008386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222008387 Walker A/P-loop; other site 526222008388 ATP binding site [chemical binding]; other site 526222008389 Q-loop/lid; other site 526222008390 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 526222008391 ABC transporter; Region: ABC_tran_2; pfam12848 526222008392 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 526222008393 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222008394 metal binding site [ion binding]; metal-binding site 526222008395 active site 526222008396 I-site; other site 526222008397 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 526222008398 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 526222008399 substrate binding pocket [chemical binding]; other site 526222008400 membrane-bound complex binding site; other site 526222008401 hinge residues; other site 526222008402 Cache domain; Region: Cache_1; pfam02743 526222008403 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 526222008404 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008405 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008406 dimer interface [polypeptide binding]; other site 526222008407 putative CheW interface [polypeptide binding]; other site 526222008408 glycogen branching enzyme; Provisional; Region: PRK12313 526222008409 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 526222008410 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 526222008411 active site 526222008412 catalytic site [active] 526222008413 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 526222008414 glycogen synthase; Provisional; Region: glgA; PRK00654 526222008415 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 526222008416 ADP-binding pocket [chemical binding]; other site 526222008417 homodimer interface [polypeptide binding]; other site 526222008418 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 526222008419 nudix motif; other site 526222008420 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 526222008421 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 526222008422 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 526222008423 active site 526222008424 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 526222008425 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 526222008426 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008427 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008428 active site 526222008429 phosphorylation site [posttranslational modification] 526222008430 intermolecular recognition site; other site 526222008431 dimerization interface [polypeptide binding]; other site 526222008432 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 526222008433 putative binding surface; other site 526222008434 active site 526222008435 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 526222008436 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 526222008437 ATP binding site [chemical binding]; other site 526222008438 Mg2+ binding site [ion binding]; other site 526222008439 G-X-G motif; other site 526222008440 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 526222008441 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222008442 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 526222008443 substrate binding pocket [chemical binding]; other site 526222008444 membrane-bound complex binding site; other site 526222008445 hinge residues; other site 526222008446 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 526222008447 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 526222008448 active site 526222008449 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 526222008450 active site 526222008451 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 526222008452 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 526222008453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008454 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 526222008455 lipoyl synthase; Provisional; Region: PRK05481 526222008456 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 526222008457 FeS/SAM binding site; other site 526222008458 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008460 active site 526222008461 phosphorylation site [posttranslational modification] 526222008462 intermolecular recognition site; other site 526222008463 dimerization interface [polypeptide binding]; other site 526222008464 HDOD domain; Region: HDOD; pfam08668 526222008465 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 526222008466 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222008467 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008468 active site 526222008469 phosphorylation site [posttranslational modification] 526222008470 intermolecular recognition site; other site 526222008471 dimerization interface [polypeptide binding]; other site 526222008472 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222008473 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 526222008474 PAS domain S-box; Region: sensory_box; TIGR00229 526222008475 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 526222008476 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 526222008477 putative active site [active] 526222008478 heme pocket [chemical binding]; other site 526222008479 sensory histidine kinase AtoS; Provisional; Region: PRK11360 526222008480 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 526222008481 ATP binding site [chemical binding]; other site 526222008482 Mg2+ binding site [ion binding]; other site 526222008483 G-X-G motif; other site 526222008484 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 526222008485 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 526222008486 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 526222008487 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 526222008488 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222008489 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 526222008490 DHH family; Region: DHH; pfam01368 526222008491 DHHA1 domain; Region: DHHA1; pfam02272 526222008492 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222008493 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 526222008494 binding surface 526222008495 TPR motif; other site 526222008496 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222008497 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 contains two...; Region: OMP_decarboxylase_like; cd04725 526222008498 active site 526222008499 dimer interface [polypeptide binding]; other site 526222008500 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 526222008501 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 526222008502 catalytic site [active] 526222008503 G-X2-G-X-G-K; other site 526222008504 Domain of unknown function (DUF370); Region: DUF370; cl00898 526222008505 hypothetical protein; Provisional; Region: PRK11820 526222008506 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 526222008507 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 526222008508 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 526222008509 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 526222008510 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 526222008511 FeS/SAM binding site; other site 526222008512 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 526222008513 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 526222008514 ATP binding site [chemical binding]; other site 526222008515 Mg++ binding site [ion binding]; other site 526222008516 motif III; other site 526222008517 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 526222008518 nucleotide binding region [chemical binding]; other site 526222008519 ATP-binding site [chemical binding]; other site 526222008520 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 526222008521 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 526222008522 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222008523 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 526222008524 putative active site [active] 526222008525 acetyl-CoA synthetase; Provisional; Region: PRK00174 526222008526 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 526222008527 AMP-binding enzyme; Region: AMP-binding; cl15778 526222008528 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222008529 Pirin-related protein [General function prediction only]; Region: COG1741 526222008530 Cupin domain; Region: Cupin_2; cl09118 526222008531 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 526222008532 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 526222008533 dimer interface [polypeptide binding]; other site 526222008534 FMN binding site [chemical binding]; other site 526222008535 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 526222008536 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 526222008537 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 526222008538 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 526222008539 B12 binding site [chemical binding]; other site 526222008540 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 526222008541 FeS/SAM binding site; other site 526222008542 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 526222008543 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 526222008544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222008545 metal binding site [ion binding]; metal-binding site 526222008546 active site 526222008547 I-site; other site 526222008548 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222008549 Zn2+ binding site [ion binding]; other site 526222008550 Mg2+ binding site [ion binding]; other site 526222008551 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 526222008552 dimer interface [polypeptide binding]; other site 526222008553 ssDNA binding site [nucleotide binding]; other site 526222008554 tetramer (dimer of dimers) interface [polypeptide binding]; other site 526222008555 pyruvate carboxylase subunit B; Validated; Region: PRK09282 526222008556 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 526222008557 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 526222008558 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 526222008559 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 526222008560 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222008561 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 526222008562 PilZ domain; Region: PilZ; cl01260 526222008563 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 526222008564 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222008565 ligand binding site [chemical binding]; other site 526222008566 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222008567 flagellar motor protein MotP; Reviewed; Region: PRK06926 526222008568 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 526222008569 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 526222008570 4Fe-4S binding domain; Region: Fer4; cl02805 526222008571 hybrid cluster protein; Provisional; Region: PRK05290 526222008572 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 526222008573 ACS interaction site; other site 526222008574 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 526222008575 hybrid metal cluster; other site 526222008576 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 526222008577 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 526222008578 4Fe-4S binding domain; Region: Fer4; cl02805 526222008579 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222008580 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 526222008581 ligand binding site [chemical binding]; other site 526222008582 flexible hinge region; other site 526222008583 Helix-turn-helix domains; Region: HTH; cl00088 526222008584 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 526222008585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008586 active site 526222008587 phosphorylation site [posttranslational modification] 526222008588 intermolecular recognition site; other site 526222008589 dimerization interface [polypeptide binding]; other site 526222008590 TPR repeat; Region: TPR_11; pfam13414 526222008591 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 526222008592 binding surface 526222008593 TPR motif; other site 526222008594 TPR repeat; Region: TPR_11; pfam13414 526222008595 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 526222008596 binding surface 526222008597 TPR motif; other site 526222008598 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 526222008599 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 526222008600 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 526222008601 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 526222008602 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 526222008603 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 526222008604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222008605 Walker A/P-loop; other site 526222008606 ATP binding site [chemical binding]; other site 526222008607 Q-loop/lid; other site 526222008608 ABC transporter signature motif; other site 526222008609 Walker B; other site 526222008610 D-loop; other site 526222008611 H-loop/switch region; other site 526222008612 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 526222008613 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 526222008614 CHASE2 domain; Region: CHASE2; cl01732 526222008615 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 526222008616 cyclase homology domain; Region: CHD; cd07302 526222008617 nucleotidyl binding site; other site 526222008618 metal binding site [ion binding]; metal-binding site 526222008619 dimer interface [polypeptide binding]; other site 526222008620 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222008621 AAA domain; Region: AAA_21; pfam13304 526222008622 Walker A/P-loop; other site 526222008623 ATP binding site [chemical binding]; other site 526222008624 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 526222008625 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 526222008626 dimer interface [polypeptide binding]; other site 526222008627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222008628 catalytic residue [active] 526222008629 Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: CysS; COG0215 526222008630 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 526222008631 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 526222008632 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 526222008633 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 526222008634 active site 526222008635 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 526222008636 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 526222008637 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008639 active site 526222008640 phosphorylation site [posttranslational modification] 526222008641 intermolecular recognition site; other site 526222008642 dimerization interface [polypeptide binding]; other site 526222008643 HDOD domain; Region: HDOD; pfam08668 526222008644 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222008645 NAD synthetase; Provisional; Region: PRK13981 526222008646 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 526222008647 multimer interface [polypeptide binding]; other site 526222008648 active site 526222008649 catalytic triad [active] 526222008650 protein interface 1 [polypeptide binding]; other site 526222008651 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 526222008652 homodimer interface [polypeptide binding]; other site 526222008653 NAD binding pocket [chemical binding]; other site 526222008654 ATP binding pocket [chemical binding]; other site 526222008655 Mg binding site [ion binding]; other site 526222008656 active-site loop [active] 526222008657 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 526222008658 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 526222008659 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 526222008660 dimer interface [polypeptide binding]; other site 526222008661 phosphorylation site [posttranslational modification] 526222008662 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 526222008663 ATP binding site [chemical binding]; other site 526222008664 Mg2+ binding site [ion binding]; other site 526222008665 G-X-G motif; other site 526222008666 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008668 active site 526222008669 phosphorylation site [posttranslational modification] 526222008670 intermolecular recognition site; other site 526222008671 dimerization interface [polypeptide binding]; other site 526222008672 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008674 active site 526222008675 phosphorylation site [posttranslational modification] 526222008676 intermolecular recognition site; other site 526222008677 dimerization interface [polypeptide binding]; other site 526222008678 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 526222008679 homodimer interface [polypeptide binding]; other site 526222008680 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 526222008681 active site pocket [active] 526222008682 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 526222008683 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 526222008684 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 526222008685 Walker A/P-loop; other site 526222008686 ATP binding site [chemical binding]; other site 526222008687 Q-loop/lid; other site 526222008688 ABC transporter signature motif; other site 526222008689 Walker B; other site 526222008690 D-loop; other site 526222008691 H-loop/switch region; other site 526222008692 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222008693 dimer interface [polypeptide binding]; other site 526222008694 conserved gate region; other site 526222008695 putative PBP binding loops; other site 526222008696 ABC-ATPase subunit interface; other site 526222008697 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 526222008698 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 526222008699 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 526222008700 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 526222008701 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 526222008702 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 526222008703 FeS/SAM binding site; other site 526222008704 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 526222008705 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 526222008706 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 526222008707 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222008708 metal binding site [ion binding]; metal-binding site 526222008709 active site 526222008710 I-site; other site 526222008711 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 526222008712 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 526222008713 Walker A motif; other site 526222008714 ATP binding site [chemical binding]; other site 526222008715 Walker B motif; other site 526222008716 arginine finger; other site 526222008717 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 526222008718 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 526222008719 RuvA N terminal domain; Region: RuvA_N; pfam01330 526222008720 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 526222008721 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 526222008722 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 includes...; Region: RuvC_resolvase; cd00529 526222008723 active site 526222008724 putative DNA-binding cleft [nucleotide binding]; other site 526222008725 dimer interface [polypeptide binding]; other site 526222008726 Transcriptional regulator; Region: Transcrip_reg; cl00361 526222008727 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 526222008728 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 526222008729 S-adenosylmethionine binding site [chemical binding]; other site 526222008730 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 526222008731 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 526222008732 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 526222008733 BON domain; Region: BON; cl02771 526222008734 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 526222008735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222008736 DNA-binding site [nucleotide binding]; DNA binding site 526222008737 FCD domain; Region: FCD; cl11656 526222008738 Cache domain; Region: Cache_1; pfam02743 526222008739 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 526222008740 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222008741 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008742 dimer interface [polypeptide binding]; other site 526222008743 putative CheW interface [polypeptide binding]; other site 526222008744 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 526222008745 hypothetical protein; Provisional; Region: PRK13560 526222008746 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 526222008747 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 526222008748 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222008749 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 526222008750 dimer interface [polypeptide binding]; other site 526222008751 phosphorylation site [posttranslational modification] 526222008752 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 526222008753 ATP binding site [chemical binding]; other site 526222008754 Mg2+ binding site [ion binding]; other site 526222008755 G-X-G motif; other site 526222008756 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 526222008757 Helix-turn-helix domains; Region: HTH; cl00088 526222008758 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 526222008759 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 526222008760 substrate-cofactor binding pocket; other site 526222008761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222008762 catalytic residue [active] 526222008763 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 526222008764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008765 NAD(P) binding site [chemical binding]; other site 526222008766 Helix-turn-helix domains; Region: HTH; cl00088 526222008767 AsmA family; Region: AsmA; pfam05170 526222008768 AsmA-like C-terminal region; Region: AsmA_2; cl15864 526222008769 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222008770 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 526222008771 DNA binding residues [nucleotide binding] 526222008772 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 526222008773 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222008774 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 526222008775 DNA binding residues [nucleotide binding] 526222008776 Short C-terminal domain; Region: SHOCT; cl01373 526222008777 DGC domain; Region: DGC; cl01742 526222008778 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 526222008779 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222008780 Coenzyme A binding pocket [chemical binding]; other site 526222008781 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 526222008782 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 526222008783 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222008784 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 526222008785 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 526222008786 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 526222008787 Cupin domain; Region: Cupin_2; cl09118 526222008788 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222008789 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222008790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222008791 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 526222008792 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222008793 Domain of unknown function (DUF389); Region: DUF389; cl00781 526222008794 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 526222008795 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 526222008796 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 526222008797 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; cl15377 526222008798 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 526222008799 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 526222008800 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 526222008801 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 526222008802 active site 526222008803 catalytic site [active] 526222008804 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222008805 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 526222008806 Walker A/P-loop; other site 526222008807 ATP binding site [chemical binding]; other site 526222008808 Q-loop/lid; other site 526222008809 ABC transporter signature motif; other site 526222008810 Walker B; other site 526222008811 D-loop; other site 526222008812 H-loop/switch region; other site 526222008813 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 526222008814 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222008815 dimer interface [polypeptide binding]; other site 526222008816 conserved gate region; other site 526222008817 putative PBP binding loops; other site 526222008818 ABC-ATPase subunit interface; other site 526222008819 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 526222008820 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 526222008821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222008822 dimer interface [polypeptide binding]; other site 526222008823 conserved gate region; other site 526222008824 putative PBP binding loops; other site 526222008825 ABC-ATPase subunit interface; other site 526222008826 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 526222008827 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 526222008828 substrate binding pocket [chemical binding]; other site 526222008829 membrane-bound complex binding site; other site 526222008830 hinge residues; other site 526222008831 transcriptional regulator protein; Region: phnR; TIGR03337 526222008832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222008833 DNA-binding site [nucleotide binding]; DNA binding site 526222008834 UTRA domain; Region: UTRA; cl01230 526222008835 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 526222008836 active site 526222008837 trimer interface [polypeptide binding]; other site 526222008838 allosteric site; other site 526222008839 active site lid [active] 526222008840 hexamer (dimer of trimers) interface [polypeptide binding]; other site 526222008841 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222008842 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 526222008843 S-adenosylmethionine binding site [chemical binding]; other site 526222008844 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 526222008845 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 526222008846 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 526222008847 protein binding site [polypeptide binding]; other site 526222008848 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 526222008849 protein binding site [polypeptide binding]; other site 526222008850 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 526222008851 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 526222008852 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 526222008853 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 526222008854 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222008855 active site 526222008856 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 526222008857 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 526222008858 5S rRNA interface [nucleotide binding]; other site 526222008859 CTC domain interface [polypeptide binding]; other site 526222008860 L16 interface [polypeptide binding]; other site 526222008861 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 526222008862 putative active site [active] 526222008863 catalytic residue [active] 526222008864 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 526222008865 transcription termination factor Rho; Provisional; Region: rho; PRK09376 526222008866 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 526222008867 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 526222008868 RNA binding site [nucleotide binding]; other site 526222008869 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 526222008870 multimer interface [polypeptide binding]; other site 526222008871 Walker A motif; other site 526222008872 ATP binding site [chemical binding]; other site 526222008873 Walker B motif; other site 526222008874 Peptidase family M48; Region: Peptidase_M48; cl12018 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 TPR repeat; Region: TPR_11; pfam13414 526222008879 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 526222008880 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 526222008881 active site 526222008882 Riboflavin kinase; Region: Flavokinase; cl03312 526222008883 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 526222008884 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 526222008885 Cl- selectivity filter; other site 526222008886 Cl- binding residues [ion binding]; other site 526222008887 pore gating glutamate residue; other site 526222008888 dimer interface [polypeptide binding]; other site 526222008889 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 526222008890 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 526222008891 active site 526222008892 HslU subunit interaction site [polypeptide binding]; other site 526222008893 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 526222008894 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 526222008895 Walker A motif; other site 526222008896 ATP binding site [chemical binding]; other site 526222008897 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222008898 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 526222008899 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 526222008900 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 526222008901 binding surface 526222008902 TPR motif; other site 526222008903 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222008904 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 526222008905 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 526222008906 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222008907 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 526222008908 diiron binding motif [ion binding]; other site 526222008909 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 526222008910 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 526222008911 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 526222008912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222008913 homodimer interface [polypeptide binding]; other site 526222008914 catalytic residue [active] 526222008915 CHASE3 domain; Region: CHASE3; cl05000 526222008916 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 526222008917 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 526222008918 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 526222008919 dimerization interface [polypeptide binding]; other site 526222008920 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222008921 dimer interface [polypeptide binding]; other site 526222008922 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 526222008923 putative CheW interface [polypeptide binding]; other site 526222008924 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 526222008925 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 526222008926 putative ligand binding site [chemical binding]; other site 526222008927 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 526222008928 TM-ABC transporter signature motif; other site 526222008929 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 526222008930 TM-ABC transporter signature motif; other site 526222008931 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 526222008932 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 526222008933 Walker A/P-loop; other site 526222008934 ATP binding site [chemical binding]; other site 526222008935 Q-loop/lid; other site 526222008936 ABC transporter signature motif; other site 526222008937 Walker B; other site 526222008938 D-loop; other site 526222008939 H-loop/switch region; other site 526222008940 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 526222008941 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 526222008942 Walker A/P-loop; other site 526222008943 ATP binding site [chemical binding]; other site 526222008944 Q-loop/lid; other site 526222008945 ABC transporter signature motif; other site 526222008946 Walker B; other site 526222008947 D-loop; other site 526222008948 H-loop/switch region; other site 526222008949 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 526222008950 UPF0126 domain; Region: UPF0126; pfam03458 526222008951 hypothetical protein; Provisional; Region: PRK10578 526222008952 UPF0126 domain; Region: UPF0126; pfam03458 526222008953 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 526222008954 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 526222008955 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 526222008956 putative active site [active] 526222008957 putative substrate binding site [chemical binding]; other site 526222008958 putative cosubstrate binding site; other site 526222008959 catalytic site [active] 526222008960 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222008961 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 526222008962 FeS/SAM binding site; other site 526222008963 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 526222008964 ATP cone domain; Region: ATP-cone; pfam03477 526222008965 Class III ribonucleotide reductase; Region: RNR_III; cd01675 526222008966 effector binding site; other site 526222008967 active site 526222008968 Zn binding site [ion binding]; other site 526222008969 glycine loop; other site 526222008970 Response regulator receiver domain; Region: Response_reg; pfam00072 526222008971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222008972 active site 526222008973 phosphorylation site [posttranslational modification] 526222008974 intermolecular recognition site; other site 526222008975 dimerization interface [polypeptide binding]; other site 526222008976 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 526222008977 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 526222008978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008979 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 526222008980 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 526222008981 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 526222008982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222008983 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 526222008984 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 526222008985 DNA polymerase I; Provisional; Region: PRK05755 526222008986 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 526222008987 active site 526222008988 metal binding site 1 [ion binding]; metal-binding site 526222008989 putative 5' ssDNA interaction site; other site 526222008990 metal binding site 3; metal-binding site 526222008991 metal binding site 2 [ion binding]; metal-binding site 526222008992 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 526222008993 putative DNA binding site [nucleotide binding]; other site 526222008994 putative metal binding site [ion binding]; other site 526222008995 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 526222008996 active site 526222008997 substrate binding site [chemical binding]; other site 526222008998 catalytic site [active] 526222008999 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 526222009000 active site 526222009001 DNA binding site [nucleotide binding] 526222009002 catalytic site [active] 526222009003 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 526222009004 DHH family; Region: DHH; pfam01368 526222009005 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 526222009006 homotrimer interface [polypeptide binding]; other site 526222009007 Walker A motif; other site 526222009008 GTP binding site [chemical binding]; other site 526222009009 Walker B motif; other site 526222009010 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 526222009011 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 526222009012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222009013 Family description; Region: UvrD_C_2; cl15862 526222009014 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 526222009015 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 526222009016 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 526222009017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009018 dimer interface [polypeptide binding]; other site 526222009019 conserved gate region; other site 526222009020 putative PBP binding loops; other site 526222009021 ABC-ATPase subunit interface; other site 526222009022 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 526222009023 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 526222009024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009025 dimer interface [polypeptide binding]; other site 526222009026 conserved gate region; other site 526222009027 putative PBP binding loops; other site 526222009028 ABC-ATPase subunit interface; other site 526222009029 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 526222009030 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 526222009031 Walker A/P-loop; other site 526222009032 ATP binding site [chemical binding]; other site 526222009033 Q-loop/lid; other site 526222009034 ABC transporter signature motif; other site 526222009035 Walker B; other site 526222009036 D-loop; other site 526222009037 H-loop/switch region; other site 526222009038 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 526222009039 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 526222009040 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 526222009041 Walker A/P-loop; other site 526222009042 ATP binding site [chemical binding]; other site 526222009043 Q-loop/lid; other site 526222009044 ABC transporter signature motif; other site 526222009045 Walker B; other site 526222009046 D-loop; other site 526222009047 H-loop/switch region; other site 526222009048 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 526222009049 TPR repeat; Region: TPR_11; pfam13414 526222009050 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 526222009051 binding surface 526222009052 TPR motif; other site 526222009053 TPR repeat; Region: TPR_11; pfam13414 526222009054 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 526222009055 binding surface 526222009056 TPR motif; other site 526222009057 TPR repeat; Region: TPR_11; pfam13414 526222009058 Flagellar protein YcgR; Region: YcgR_2; pfam12945 526222009059 PilZ domain; Region: PilZ; cl01260 526222009060 biotin synthase; Region: bioB; TIGR00433 526222009061 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 526222009062 FeS/SAM binding site; other site 526222009063 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 526222009064 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 526222009065 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 526222009066 inhibitor-cofactor binding pocket; inhibition site 526222009067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009068 catalytic residue [active] 526222009069 AAA domain; Region: AAA_26; pfam13500 526222009070 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222009071 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 526222009072 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 526222009073 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 526222009074 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 526222009075 putative ligand binding pocket/active site [active] 526222009076 putative metal binding site [ion binding]; other site 526222009077 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 526222009078 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 526222009079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 526222009080 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 526222009081 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222009082 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 526222009083 Walker A motif; other site 526222009084 ATP binding site [chemical binding]; other site 526222009085 Walker B motif; other site 526222009086 arginine finger; other site 526222009087 Helix-turn-helix domains; Region: HTH; cl00088 526222009088 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 526222009089 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222009090 putative substrate translocation pore; other site 526222009091 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 526222009092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222009093 Helix-turn-helix domains; Region: HTH; cl00088 526222009094 Rrf2 family protein; Region: rrf2_super; TIGR00738 526222009095 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 526222009096 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 526222009097 active site residue [active] 526222009098 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 526222009099 agmatine deiminase; Region: agmatine_aguA; TIGR03380 526222009100 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 526222009101 nickel responsive regulator; Provisional; Region: PRK04460 526222009102 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 526222009103 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 526222009104 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 526222009105 S-adenosylmethionine binding site [chemical binding]; other site 526222009106 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 526222009107 lipoyl attachment site [posttranslational modification]; other site 526222009108 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 526222009109 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 526222009110 tetramer interface [polypeptide binding]; other site 526222009111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009112 catalytic residue [active] 526222009113 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 526222009114 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 526222009115 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 526222009116 catalytic residue [active] 526222009117 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 526222009118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222009119 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222009120 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222009121 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 526222009122 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222009123 substrate binding pocket [chemical binding]; other site 526222009124 membrane-bound complex binding site; other site 526222009125 hinge residues; other site 526222009126 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222009127 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 526222009128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222009129 DRTGG domain; Region: DRTGG; cl12147 526222009130 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 526222009131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222009132 CoA-ligase; Region: Ligase_CoA; cl02894 526222009133 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222009134 ribonuclease III; Reviewed; Region: rnc; PRK00102 526222009135 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 526222009136 dimerization interface [polypeptide binding]; other site 526222009137 active site 526222009138 metal binding site [ion binding]; metal-binding site 526222009139 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 526222009140 dsRNA binding site [nucleotide binding]; other site 526222009141 flagellin; Provisional; Region: PRK12802 526222009142 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 526222009143 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 526222009144 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 526222009145 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 526222009146 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 526222009147 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 526222009148 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 526222009149 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 526222009150 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 526222009151 FlgD Ig-like domain; Region: FlgD_ig; cl15790 526222009152 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 526222009153 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222009154 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 526222009155 putative active site [active] 526222009156 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 526222009157 active site 526222009158 intersubunit interactions; other site 526222009159 catalytic residue [active] 526222009160 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 526222009161 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 526222009162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009163 catalytic residue [active] 526222009164 Flagellin N-methylase; Region: FliB; cl00497 526222009165 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 526222009166 Membrane transport protein; Region: Mem_trans; cl09117 526222009167 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 526222009168 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 526222009169 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 526222009170 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 526222009171 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 526222009172 dimer interface [polypeptide binding]; other site 526222009173 phosphorylation site [posttranslational modification] 526222009174 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 526222009175 ATP binding site [chemical binding]; other site 526222009176 Mg2+ binding site [ion binding]; other site 526222009177 G-X-G motif; other site 526222009178 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009180 active site 526222009181 phosphorylation site [posttranslational modification] 526222009182 intermolecular recognition site; other site 526222009183 dimerization interface [polypeptide binding]; other site 526222009184 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009186 active site 526222009187 phosphorylation site [posttranslational modification] 526222009188 intermolecular recognition site; other site 526222009189 dimerization interface [polypeptide binding]; other site 526222009190 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 526222009191 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 526222009192 ligand binding site [chemical binding]; other site 526222009193 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 526222009194 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222009195 G1 box; other site 526222009196 GTP/Mg2+ binding site [chemical binding]; other site 526222009197 G2 box; other site 526222009198 Switch I region; other site 526222009199 G3 box; other site 526222009200 Switch II region; other site 526222009201 G4 box; other site 526222009202 G5 box; other site 526222009203 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 526222009204 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 526222009205 active site 526222009206 HIGH motif; other site 526222009207 nucleotide binding site [chemical binding]; other site 526222009208 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 526222009209 KMSKS motif; other site 526222009210 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 526222009211 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 526222009212 Chemotaxis phosphatase CheX; Region: CheX; cl15816 526222009213 PAS domain S-box; Region: sensory_box; TIGR00229 526222009214 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 526222009215 putative active site [active] 526222009216 heme pocket [chemical binding]; other site 526222009217 PAS domain S-box; Region: sensory_box; TIGR00229 526222009218 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 526222009219 putative active site [active] 526222009220 heme pocket [chemical binding]; other site 526222009221 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222009222 metal binding site [ion binding]; metal-binding site 526222009223 active site 526222009224 I-site; other site 526222009225 Helix-turn-helix domains; Region: HTH; cl00088 526222009226 Predicted transcriptional regulator [Transcription]; Region: COG2932 526222009227 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 526222009228 Catalytic site [active] 526222009229 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 526222009230 oligomerisation interface [polypeptide binding]; other site 526222009231 mobile loop; other site 526222009232 roof hairpin; other site 526222009233 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 526222009234 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 526222009235 ring oligomerisation interface [polypeptide binding]; other site 526222009236 ATP/Mg binding site [chemical binding]; other site 526222009237 stacking interactions; other site 526222009238 hinge regions; other site 526222009239 lipoyl synthase; Provisional; Region: PRK05481 526222009240 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 526222009241 FeS/SAM binding site; other site 526222009242 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 526222009243 lipoyl attachment site [posttranslational modification]; other site 526222009244 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 526222009245 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222009246 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 526222009247 OsmC-like protein; Region: OsmC; cl00767 526222009248 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 526222009249 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 526222009250 binding surface 526222009251 TPR motif; other site 526222009252 Peptidase family M48; Region: Peptidase_M48; cl12018 526222009253 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 526222009254 active site 526222009255 intersubunit interface [polypeptide binding]; other site 526222009256 Zn2+ binding site [ion binding]; other site 526222009257 MarC family integral membrane protein; Region: MarC; cl00919 526222009258 PAS domain; Region: PAS_9; pfam13426 526222009259 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 526222009260 PAS domain; Region: PAS_9; pfam13426 526222009261 putative active site [active] 526222009262 heme pocket [chemical binding]; other site 526222009263 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 526222009264 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 526222009265 dimer interface [polypeptide binding]; other site 526222009266 phosphorylation site [posttranslational modification] 526222009267 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009269 active site 526222009270 phosphorylation site [posttranslational modification] 526222009271 intermolecular recognition site; other site 526222009272 dimerization interface [polypeptide binding]; other site 526222009273 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 526222009274 putative CheA interaction surface; other site 526222009275 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 526222009276 dimerization interface [polypeptide binding]; other site 526222009277 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222009278 dimer interface [polypeptide binding]; other site 526222009279 putative CheW interface [polypeptide binding]; other site 526222009280 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 526222009281 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 526222009282 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009284 active site 526222009285 phosphorylation site [posttranslational modification] 526222009286 intermolecular recognition site; other site 526222009287 dimerization interface [polypeptide binding]; other site 526222009288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009289 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009290 active site 526222009291 phosphorylation site [posttranslational modification] 526222009292 intermolecular recognition site; other site 526222009293 dimerization interface [polypeptide binding]; other site 526222009294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222009295 metal binding site [ion binding]; metal-binding site 526222009296 active site 526222009297 I-site; other site 526222009298 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 526222009299 active site 526222009300 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 526222009301 heme-binding residues [chemical binding]; other site 526222009302 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 526222009303 Cysteine-rich domain; Region: CCG; pfam02754 526222009304 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 526222009305 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 526222009306 DRTGG domain; Region: DRTGG; cl12147 526222009307 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 526222009308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222009309 CoA-ligase; Region: Ligase_CoA; cl02894 526222009310 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222009311 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222009312 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222009313 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222009314 Protein export membrane protein; Region: SecD_SecF; cl14618 526222009315 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222009316 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 526222009317 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 526222009318 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 526222009319 osmolarity response regulator; Provisional; Region: ompR; PRK09468 526222009320 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009321 active site 526222009322 phosphorylation site [posttranslational modification] 526222009323 intermolecular recognition site; other site 526222009324 dimerization interface [polypeptide binding]; other site 526222009325 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 526222009326 DNA binding site [nucleotide binding] 526222009327 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 526222009328 dimerization interface [polypeptide binding]; other site 526222009329 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 526222009330 dimer interface [polypeptide binding]; other site 526222009331 phosphorylation site [posttranslational modification] 526222009332 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 526222009333 ATP binding site [chemical binding]; other site 526222009334 Mg2+ binding site [ion binding]; other site 526222009335 G-X-G motif; other site 526222009336 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222009337 Coenzyme A binding pocket [chemical binding]; other site 526222009338 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 526222009339 S-adenosylmethionine binding site [chemical binding]; other site 526222009340 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 526222009341 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 526222009342 substrate binding site [chemical binding]; other site 526222009343 active site 526222009344 catalytic residues [active] 526222009345 heterodimer interface [polypeptide binding]; other site 526222009346 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 526222009347 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 526222009348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009349 catalytic residue [active] 526222009350 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 monomeric; Region: PRAI; cd00405 526222009351 active site 526222009352 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 526222009353 active site 526222009354 ribulose/triose binding site [chemical binding]; other site 526222009355 phosphate binding site [ion binding]; other site 526222009356 substrate (anthranilate) binding pocket [chemical binding]; other site 526222009357 product (indole) binding pocket [chemical binding]; other site 526222009358 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 526222009359 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 526222009360 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 526222009361 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 526222009362 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 526222009363 glutamine binding [chemical binding]; other site 526222009364 catalytic triad [active] 526222009365 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 526222009366 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 526222009367 chorismate binding enzyme; Region: Chorismate_bind; cl10555 526222009368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222009369 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 526222009370 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 526222009371 hinge; other site 526222009372 active site 526222009373 Chorismate mutase type II; Region: CM_2; cl00693 526222009374 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 526222009375 Prephenate dehydratase; Region: PDT; pfam00800 526222009376 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 526222009377 putative L-Phe binding site [chemical binding]; other site 526222009378 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 526222009379 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 526222009380 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 526222009381 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 526222009382 putative active site; other site 526222009383 catalytic residue [active] 526222009384 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 526222009385 Nitrogen regulatory protein P-II; Region: P-II; cl00412 526222009386 Nitrogen regulatory protein P-II; Region: P-II; smart00938 526222009387 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 526222009388 Predicted permeases [General function prediction only]; Region: RarD; COG2962 526222009389 EamA-like transporter family; Region: EamA; cl01037 526222009390 Cache domain; Region: Cache_1; pfam02743 526222009391 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 526222009392 PAS fold; Region: PAS_3; pfam08447 526222009393 putative active site [active] 526222009394 heme pocket [chemical binding]; other site 526222009395 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 526222009396 PAS domain; Region: PAS_9; pfam13426 526222009397 putative active site [active] 526222009398 heme pocket [chemical binding]; other site 526222009399 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222009400 metal binding site [ion binding]; metal-binding site 526222009401 active site 526222009402 I-site; other site 526222009403 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 526222009404 Aspartase; Region: Aspartase; cd01357 526222009405 active sites [active] 526222009406 tetramer interface [polypeptide binding]; other site 526222009407 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 526222009408 aromatic amino acid transport protein; Region: araaP; TIGR00837 526222009409 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 526222009410 Nicotine adenine dinucleotide glycohydrolase (NADase); Region: NADase_NGA; pfam07461 526222009411 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 526222009412 RNA/DNA binding site [nucleotide binding]; other site 526222009413 RRM dimerization site [polypeptide binding]; other site 526222009414 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 526222009415 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 526222009416 ATP binding site [chemical binding]; other site 526222009417 Mg++ binding site [ion binding]; other site 526222009418 motif III; other site 526222009419 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 526222009420 nucleotide binding region [chemical binding]; other site 526222009421 ATP-binding site [chemical binding]; other site 526222009422 Adenosylhomocysteinase; Provisional; Region: PTZ00075 526222009423 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 526222009424 oligomerization interface [polypeptide binding]; other site 526222009425 active site 526222009426 NAD+ binding site [chemical binding]; other site 526222009427 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 526222009428 putative DNA binding site [nucleotide binding]; other site 526222009429 dimerization interface [polypeptide binding]; other site 526222009430 putative Zn2+ binding site [ion binding]; other site 526222009431 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222009432 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 526222009433 S-adenosylmethionine binding site [chemical binding]; other site 526222009434 Protein of unknown function (DUF721); Region: DUF721; cl02324 526222009435 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 526222009436 Helix-turn-helix domains; Region: HTH; cl00088 526222009437 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 526222009438 dimerization interface [polypeptide binding]; other site 526222009439 substrate binding pocket [chemical binding]; other site 526222009440 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222009441 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222009442 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 526222009443 PhoU domain; Region: PhoU; pfam01895 526222009444 PhoU domain; Region: PhoU; pfam01895 526222009445 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222009446 active site 526222009447 ATP binding site [chemical binding]; other site 526222009448 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 526222009449 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222009450 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 526222009451 active site 526222009452 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 526222009453 phosphate binding site [ion binding]; other site 526222009454 putative substrate binding pocket [chemical binding]; other site 526222009455 dimer interface [polypeptide binding]; other site 526222009456 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 526222009457 4Fe-4S binding domain; Region: Fer4; cl02805 526222009458 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 526222009459 putative FMN binding site [chemical binding]; other site 526222009460 PAS domain S-box; Region: sensory_box; TIGR00229 526222009461 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 526222009462 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222009463 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 526222009464 dimer interface [polypeptide binding]; other site 526222009465 phosphorylation site [posttranslational modification] 526222009466 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 526222009467 ATP binding site [chemical binding]; other site 526222009468 Mg2+ binding site [ion binding]; other site 526222009469 G-X-G motif; other site 526222009470 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009471 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009472 active site 526222009473 phosphorylation site [posttranslational modification] 526222009474 intermolecular recognition site; other site 526222009475 dimerization interface [polypeptide binding]; other site 526222009476 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 526222009477 endonuclease IV; Provisional; Region: PRK01060 526222009478 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 526222009479 AP (apurinic/apyrimidinic) site pocket; other site 526222009480 DNA interaction; other site 526222009481 Metal-binding active site; metal-binding site 526222009482 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 526222009483 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 526222009484 phosphate binding site [ion binding]; other site 526222009485 putative substrate binding pocket [chemical binding]; other site 526222009486 dimer interface [polypeptide binding]; other site 526222009487 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 526222009488 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222009489 Protein of unknown function, DUF482; Region: DUF482; pfam04339 526222009490 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 526222009491 Helix-turn-helix domains; Region: HTH; cl00088 526222009492 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 526222009493 dimerization interface [polypeptide binding]; other site 526222009494 substrate binding pocket [chemical binding]; other site 526222009495 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 526222009496 trimerization site [polypeptide binding]; other site 526222009497 active site 526222009498 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 526222009499 PAS domain S-box; Region: sensory_box; TIGR00229 526222009500 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 526222009501 putative active site [active] 526222009502 heme pocket [chemical binding]; other site 526222009503 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 526222009504 dimer interface [polypeptide binding]; other site 526222009505 phosphorylation site [posttranslational modification] 526222009506 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 526222009507 ATP binding site [chemical binding]; other site 526222009508 Mg2+ binding site [ion binding]; other site 526222009509 G-X-G motif; other site 526222009510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009511 active site 526222009512 phosphorylation site [posttranslational modification] 526222009513 intermolecular recognition site; other site 526222009514 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222009515 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 526222009516 putative catalytic site [active] 526222009517 putative metal binding site [ion binding]; other site 526222009518 putative phosphate binding site [ion binding]; other site 526222009519 Galactose binding lectin domain; Region: Gal_Lectin; pfam02140 526222009520 UPF0489 domain; Region: UPF0489; pfam12640 526222009521 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 526222009522 Predicted transcriptional regulator [Transcription]; Region: COG2932 526222009523 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 526222009524 Catalytic site [active] 526222009525 ribonuclease R; Region: RNase_R; TIGR02063 526222009526 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 526222009527 RNB domain; Region: RNB; pfam00773 526222009528 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 play an important...; Region: S1_RNase_R; cd04471 526222009529 RNA binding site [nucleotide binding]; other site 526222009530 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 526222009531 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 526222009532 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 526222009533 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 526222009534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222009535 putative substrate translocation pore; other site 526222009536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 526222009537 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 526222009538 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 526222009539 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 526222009540 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 526222009541 Ligand Binding Site [chemical binding]; other site 526222009542 Domain of unknown function (DUF814); Region: DUF814; pfam05670 526222009543 recombinase A; Provisional; Region: recA; PRK09354 526222009544 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 526222009545 hexamer interface [polypeptide binding]; other site 526222009546 Walker A motif; other site 526222009547 ATP binding site [chemical binding]; other site 526222009548 Walker B motif; other site 526222009549 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 526222009550 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 formation of...; Region: AlaRS_core; cd00673 526222009551 motif 1; other site 526222009552 active site 526222009553 motif 2; other site 526222009554 motif 3; other site 526222009555 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 526222009556 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 526222009557 23S rRNA interface [nucleotide binding]; other site 526222009558 L3 interface [polypeptide binding]; other site 526222009559 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 526222009560 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 526222009561 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 526222009562 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 526222009563 phosphorylation site [posttranslational modification] 526222009564 dimer interface [polypeptide binding]; other site 526222009565 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 526222009566 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 526222009567 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222009568 FeS/SAM binding site; other site 526222009569 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 526222009570 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 526222009571 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 526222009572 Sel1 repeat; Region: Sel1; cl02723 526222009573 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 526222009574 Sel1 repeat; Region: Sel1; cl02723 526222009575 Sel1 repeat; Region: Sel1; cl02723 526222009576 Sel1 repeat; Region: Sel1; cl02723 526222009577 Sel1 repeat; Region: Sel1; cl02723 526222009578 Sel1 repeat; Region: Sel1; cl02723 526222009579 Sel1 repeat; Region: Sel1; cl02723 526222009580 Sel1 repeat; Region: Sel1; cl02723 526222009581 Sel1 repeat; Region: Sel1; cl02723 526222009582 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 526222009583 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 526222009584 dimerization interface [polypeptide binding]; other site 526222009585 putative ATP binding site [chemical binding]; other site 526222009586 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 526222009587 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 526222009588 FeS/SAM binding site; other site 526222009589 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 526222009590 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 526222009591 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 526222009592 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 526222009593 DsrE/DsrF-like family; Region: DrsE; cl00672 526222009594 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 526222009595 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 526222009596 Helix-turn-helix domains; Region: HTH; cl00088 526222009597 Helix-turn-helix domains; Region: HTH; cl00088 526222009598 Uncharacterized conserved protein [Function unknown]; Region: COG1284 526222009599 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 526222009600 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 526222009601 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 526222009602 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222009603 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 526222009604 substrate binding pocket [chemical binding]; other site 526222009605 membrane-bound complex binding site; other site 526222009606 hinge residues; other site 526222009607 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 526222009608 PAS fold; Region: PAS_3; pfam08447 526222009609 putative active site [active] 526222009610 heme pocket [chemical binding]; other site 526222009611 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 526222009612 dimer interface [polypeptide binding]; other site 526222009613 phosphorylation site [posttranslational modification] 526222009614 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 526222009615 ATP binding site [chemical binding]; other site 526222009616 Mg2+ binding site [ion binding]; other site 526222009617 G-X-G motif; other site 526222009618 sensory histidine kinase AtoS; Provisional; Region: PRK11360 526222009619 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 526222009620 dimer interface [polypeptide binding]; other site 526222009621 phosphorylation site [posttranslational modification] 526222009622 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 526222009623 ATP binding site [chemical binding]; other site 526222009624 Mg2+ binding site [ion binding]; other site 526222009625 G-X-G motif; other site 526222009626 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 526222009627 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 526222009628 ligand binding site [chemical binding]; other site 526222009629 Domain of unknown function (DUF389); Region: DUF389; cl00781 526222009630 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 526222009631 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 526222009632 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222009633 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 526222009634 dimer interface [polypeptide binding]; other site 526222009635 phosphorylation site [posttranslational modification] 526222009636 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 526222009637 ATP binding site [chemical binding]; other site 526222009638 Mg2+ binding site [ion binding]; other site 526222009639 G-X-G motif; other site 526222009640 glycerol kinase; Provisional; Region: glpK; PRK00047 526222009641 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 526222009642 N- and C-terminal domain interface [polypeptide binding]; other site 526222009643 active site 526222009644 MgATP binding site [chemical binding]; other site 526222009645 catalytic site [active] 526222009646 metal binding site [ion binding]; metal-binding site 526222009647 glycerol binding site [chemical binding]; other site 526222009648 homotetramer interface [polypeptide binding]; other site 526222009649 homodimer interface [polypeptide binding]; other site 526222009650 FBP binding site [chemical binding]; other site 526222009651 protein IIAGlc interface [polypeptide binding]; other site 526222009652 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 526222009653 amphipathic channel; other site 526222009654 Asn-Pro-Ala signature motifs; other site 526222009655 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 526222009656 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 526222009657 Helix-turn-helix domains; Region: HTH; cl00088 526222009658 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 526222009659 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 526222009660 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 526222009661 FeS/SAM binding site; other site 526222009662 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 526222009663 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222009664 TSCPD domain; Region: TSCPD; cl14834 526222009665 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 526222009666 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222009667 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 526222009668 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 526222009669 putative active site [active] 526222009670 catalytic site [active] 526222009671 putative metal binding site [ion binding]; other site 526222009672 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 526222009673 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 526222009674 putative active site [active] 526222009675 metal binding site [ion binding]; metal-binding site 526222009676 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 526222009677 Ca2+ binding site [ion binding]; other site 526222009678 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 526222009679 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 526222009680 DNA binding site [nucleotide binding] 526222009681 Int/Topo IB signature motif; other site 526222009682 active site 526222009683 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 526222009684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222009685 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 526222009686 nucleoside/Zn binding site; other site 526222009687 dimer interface [polypeptide binding]; other site 526222009688 catalytic motif [active] 526222009689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222009690 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222009691 putative substrate translocation pore; other site 526222009692 LysE type translocator; Region: LysE; cl00565 526222009693 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 526222009694 aspartate racemase; Region: asp_race; TIGR00035 526222009695 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 526222009696 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222009697 AAA domain; Region: AAA_28; pfam13521 526222009698 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 526222009699 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 526222009700 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 526222009701 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009702 dimer interface [polypeptide binding]; other site 526222009703 conserved gate region; other site 526222009704 putative PBP binding loops; other site 526222009705 ABC-ATPase subunit interface; other site 526222009706 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 526222009707 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 526222009708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222009709 dimer interface [polypeptide binding]; other site 526222009710 conserved gate region; other site 526222009711 putative PBP binding loops; other site 526222009712 ABC-ATPase subunit interface; other site 526222009713 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 526222009714 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 526222009715 Walker A/P-loop; other site 526222009716 ATP binding site [chemical binding]; other site 526222009717 Q-loop/lid; other site 526222009718 ABC transporter signature motif; other site 526222009719 Walker B; other site 526222009720 D-loop; other site 526222009721 H-loop/switch region; other site 526222009722 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 526222009723 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 526222009724 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 526222009725 Walker A/P-loop; other site 526222009726 ATP binding site [chemical binding]; other site 526222009727 Q-loop/lid; other site 526222009728 ABC transporter signature motif; other site 526222009729 Walker B; other site 526222009730 D-loop; other site 526222009731 H-loop/switch region; other site 526222009732 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 526222009733 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222009734 Helix-turn-helix domains; Region: HTH; cl00088 526222009735 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 526222009736 dimerization interface [polypeptide binding]; other site 526222009737 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 526222009738 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 526222009739 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 526222009740 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 526222009741 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 526222009742 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 526222009743 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 526222009744 GTP binding site; other site 526222009745 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 526222009746 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 526222009747 dimer interface [polypeptide binding]; other site 526222009748 putative functional site; other site 526222009749 putative MPT binding site; other site 526222009750 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 526222009751 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 526222009752 putative active site [active] 526222009753 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222009754 hypothetical protein; Validated; Region: PRK06672 526222009755 DnaA N-terminal domain; Region: DnaA_N; pfam11638 526222009756 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 526222009757 DnaA N-terminal domain; Region: DnaA_N; pfam11638 526222009758 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 526222009759 ATP binding site [chemical binding]; other site 526222009760 Walker A motif; other site 526222009761 Walker B motif; other site 526222009762 arginine finger; other site 526222009763 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 526222009764 DnaA box-binding interface [nucleotide binding]; other site 526222009765 Thymidylate synthase complementing protein; Region: Thy1; cl03630 526222009766 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 526222009767 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 526222009768 G1 box; other site 526222009769 putative GEF interaction site [polypeptide binding]; other site 526222009770 GTP/Mg2+ binding site [chemical binding]; other site 526222009771 Switch I region; other site 526222009772 G2 box; other site 526222009773 G3 box; other site 526222009774 Switch II region; other site 526222009775 G4 box; other site 526222009776 G5 box; other site 526222009777 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 526222009778 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 526222009779 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 526222009780 PAS domain; Region: PAS_9; pfam13426 526222009781 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 526222009782 PAS fold; Region: PAS_3; pfam08447 526222009783 putative active site [active] 526222009784 heme pocket [chemical binding]; other site 526222009785 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 526222009786 dimer interface [polypeptide binding]; other site 526222009787 phosphorylation site [posttranslational modification] 526222009788 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 526222009789 ATP binding site [chemical binding]; other site 526222009790 Mg2+ binding site [ion binding]; other site 526222009791 G-X-G motif; other site 526222009792 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 526222009793 active site 526222009794 homotetramer interface [polypeptide binding]; other site 526222009795 homodimer interface [polypeptide binding]; other site 526222009796 PPIC-type PPIASE domain; Region: Rotamase; cl08278 526222009797 multifunctional aminopeptidase A; Provisional; Region: PRK00913 526222009798 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 526222009799 interface (dimer of trimers) [polypeptide binding]; other site 526222009800 Substrate-binding/catalytic site; other site 526222009801 Zn-binding sites [ion binding]; other site 526222009802 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 526222009803 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222009804 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 526222009805 anti sigma factor interaction site; other site 526222009806 regulatory phosphorylation site [posttranslational modification]; other site 526222009807 4Fe-4S binding domain; Region: Fer4; cl02805 526222009808 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222009809 4Fe-4S binding domain; Region: Fer4; cl02805 526222009810 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222009811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009812 active site 526222009813 phosphorylation site [posttranslational modification] 526222009814 intermolecular recognition site; other site 526222009815 dimerization interface [polypeptide binding]; other site 526222009816 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222009817 Zn2+ binding site [ion binding]; other site 526222009818 Mg2+ binding site [ion binding]; other site 526222009819 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 526222009820 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 526222009821 substrate binding site [chemical binding]; other site 526222009822 Protein of unknown function (DUF401); Region: DUF401; cl00830 526222009823 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 526222009824 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 526222009825 TPR motif; other site 526222009826 binding surface 526222009827 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 526222009828 binding surface 526222009829 TPR repeat; Region: TPR_11; pfam13414 526222009830 TPR motif; other site 526222009831 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222009832 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 526222009833 Ligand binding site; other site 526222009834 Putative Catalytic site; other site 526222009835 DXD motif; other site 526222009836 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 526222009837 Amidinotransferase; Region: Amidinotransf; cl12043 526222009838 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222009839 hemolysin TlyA family protein; Region: tly; TIGR00478 526222009840 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 526222009841 S-adenosylmethionine binding site [chemical binding]; other site 526222009842 Cobalt transport protein; Region: CbiQ; cl00463 526222009843 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 526222009844 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 526222009845 Walker A/P-loop; other site 526222009846 ATP binding site [chemical binding]; other site 526222009847 Q-loop/lid; other site 526222009848 ABC transporter signature motif; other site 526222009849 Walker B; other site 526222009850 D-loop; other site 526222009851 H-loop/switch region; other site 526222009852 3D domain; Region: 3D; cl01439 526222009853 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 526222009854 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 526222009855 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 includes...; Region: RuvC_resolvase; cl00243 526222009856 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 526222009857 RNA binding site [nucleotide binding]; other site 526222009858 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 526222009859 binding surface 526222009860 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222009861 TPR motif; other site 526222009862 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 526222009863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222009864 DNA-binding site [nucleotide binding]; DNA binding site 526222009865 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 526222009866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222009867 homodimer interface [polypeptide binding]; other site 526222009868 catalytic residue [active] 526222009869 AzlC protein; Region: AzlC; cl00570 526222009870 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 526222009871 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222009872 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 526222009873 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 526222009874 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 526222009875 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 526222009876 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222009877 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 526222009878 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 526222009879 DctM-like transporters; Region: DctM; pfam06808 526222009880 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 526222009881 Metal-binding active site; metal-binding site 526222009882 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 526222009883 active site 526222009884 Zn binding site [ion binding]; other site 526222009885 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 526222009886 adenylosuccinate lyase; Provisional; Region: PRK07492 526222009887 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 526222009888 tetramer interface [polypeptide binding]; other site 526222009889 active site 526222009890 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 526222009891 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 526222009892 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 526222009893 NlpC/P60 family; Region: NLPC_P60; cl11438 526222009894 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12667 526222009895 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 526222009896 NADH dehydrogenase; Region: NADHdh; cl00469 526222009897 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 526222009898 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 526222009899 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 526222009900 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 526222009901 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 526222009902 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222009903 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 526222009904 FtsX-like permease family; Region: FtsX; cl15850 526222009905 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222009906 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 526222009907 Walker A/P-loop; other site 526222009908 ATP binding site [chemical binding]; other site 526222009909 Q-loop/lid; other site 526222009910 ABC transporter signature motif; other site 526222009911 Walker B; other site 526222009912 D-loop; other site 526222009913 H-loop/switch region; other site 526222009914 macrolide transporter subunit MacA; Provisional; Region: PRK11578 526222009915 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 526222009916 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 526222009917 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 526222009918 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 526222009919 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 526222009920 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 526222009921 RNA binding surface [nucleotide binding]; other site 526222009922 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 526222009923 active site 526222009924 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 526222009925 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 526222009926 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 526222009927 TolB amino-terminal domain; Region: TolB_N; cl00639 526222009928 Family description; Region: VCBS; pfam13517 526222009929 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; cl15754 526222009930 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 526222009931 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 526222009932 putative active site; other site 526222009933 catalytic residue [active] 526222009934 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 526222009935 putative active site [active] 526222009936 putative metal binding residues [ion binding]; other site 526222009937 signature motif; other site 526222009938 putative triphosphate binding site [ion binding]; other site 526222009939 dimer interface [polypeptide binding]; other site 526222009940 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 526222009941 Helix-turn-helix domain; Region: HTH_18; pfam12833 526222009942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222009943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 526222009944 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 526222009945 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222009946 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 526222009947 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 526222009948 conserved cys residue [active] 526222009949 N-acetyltransferase; Region: Acetyltransf_2; cl00949 526222009950 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 526222009951 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 526222009952 Methyltransferase domain; Region: Methyltransf_31; pfam13847 526222009953 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 526222009954 S-adenosylmethionine binding site [chemical binding]; other site 526222009955 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222009956 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 526222009957 ATP binding site [chemical binding]; other site 526222009958 Mg2+ binding site [ion binding]; other site 526222009959 G-X-G motif; other site 526222009960 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 526222009961 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222009962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009963 active site 526222009964 phosphorylation site [posttranslational modification] 526222009965 intermolecular recognition site; other site 526222009966 dimerization interface [polypeptide binding]; other site 526222009967 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222009968 Zn2+ binding site [ion binding]; other site 526222009969 Mg2+ binding site [ion binding]; other site 526222009970 PAS domain S-box; Region: sensory_box; TIGR00229 526222009971 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 526222009972 putative active site [active] 526222009973 heme pocket [chemical binding]; other site 526222009974 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222009975 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 526222009976 putative active site [active] 526222009977 heme pocket [chemical binding]; other site 526222009978 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 526222009979 dimer interface [polypeptide binding]; other site 526222009980 phosphorylation site [posttranslational modification] 526222009981 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 526222009982 ATP binding site [chemical binding]; other site 526222009983 Mg2+ binding site [ion binding]; other site 526222009984 G-X-G motif; other site 526222009985 Response regulator receiver domain; Region: Response_reg; pfam00072 526222009986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222009987 active site 526222009988 phosphorylation site [posttranslational modification] 526222009989 intermolecular recognition site; other site 526222009990 dimerization interface [polypeptide binding]; other site 526222009991 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 526222009992 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 526222009993 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 526222009994 PhnA protein; Region: PhnA; pfam03831 526222009995 Cache domain; Region: Cache_1; pfam02743 526222009996 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 526222009997 dimerization interface [polypeptide binding]; other site 526222009998 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222009999 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010000 dimer interface [polypeptide binding]; other site 526222010001 putative CheW interface [polypeptide binding]; other site 526222010002 Cache domain; Region: Cache_1; pfam02743 526222010003 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 526222010004 dimerization interface [polypeptide binding]; other site 526222010005 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010006 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010007 dimer interface [polypeptide binding]; other site 526222010008 putative CheW interface [polypeptide binding]; other site 526222010009 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 526222010010 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 526222010011 active site 526222010012 catalytic tetrad [active] 526222010013 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 526222010014 DNA binding site [nucleotide binding] 526222010015 active site 526222010016 Cupin domain; Region: Cupin_2; cl09118 526222010017 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222010018 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 526222010019 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222010020 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 526222010021 octamerization interface [polypeptide binding]; other site 526222010022 diferric-oxygen binding site [ion binding]; other site 526222010023 EamA-like transporter family; Region: EamA; cl01037 526222010024 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222010025 EamA-like transporter family; Region: EamA; cl01037 526222010026 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 526222010027 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 526222010028 ligand binding site [chemical binding]; other site 526222010029 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 526222010030 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010031 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 526222010032 dimer interface [polypeptide binding]; other site 526222010033 phosphorylation site [posttranslational modification] 526222010034 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 526222010035 ATP binding site [chemical binding]; other site 526222010036 Mg2+ binding site [ion binding]; other site 526222010037 G-X-G motif; other site 526222010038 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010040 active site 526222010041 phosphorylation site [posttranslational modification] 526222010042 intermolecular recognition site; other site 526222010043 dimerization interface [polypeptide binding]; other site 526222010044 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 526222010045 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 526222010046 active site 526222010047 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 526222010048 domain_subunit interface; other site 526222010049 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 526222010050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222010051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222010052 4Fe-4S binding domain; Region: Fer4; cl02805 526222010053 4Fe-4S binding domain; Region: Fer4; cl02805 526222010054 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 526222010055 4Fe-4S binding domain; Region: Fer4; cl02805 526222010056 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 526222010057 active site 526222010058 FMN binding site [chemical binding]; other site 526222010059 substrate binding site [chemical binding]; other site 526222010060 3Fe-4S cluster binding site [ion binding]; other site 526222010061 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 526222010062 putative active site [active] 526222010063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222010064 Helix-turn-helix domains; Region: HTH; cl00088 526222010065 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 526222010066 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222010067 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010068 Zn2+ binding site [ion binding]; other site 526222010069 Mg2+ binding site [ion binding]; other site 526222010070 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 526222010071 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 526222010072 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 526222010073 META domain; Region: META; cl01245 526222010074 PAS fold; Region: PAS_4; pfam08448 526222010075 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010076 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 526222010077 ATP binding site [chemical binding]; other site 526222010078 Mg2+ binding site [ion binding]; other site 526222010079 G-X-G motif; other site 526222010080 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 526222010081 active site 526222010082 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 526222010083 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222010084 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 526222010085 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 526222010086 Late competence development protein ComFB; Region: ComFB; pfam10719 526222010087 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222010088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010089 active site 526222010090 phosphorylation site [posttranslational modification] 526222010091 intermolecular recognition site; other site 526222010092 dimerization interface [polypeptide binding]; other site 526222010093 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010095 active site 526222010096 phosphorylation site [posttranslational modification] 526222010097 intermolecular recognition site; other site 526222010098 dimerization interface [polypeptide binding]; other site 526222010099 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222010100 metal binding site [ion binding]; metal-binding site 526222010101 active site 526222010102 I-site; other site 526222010103 DGC domain; Region: DGC; cl01742 526222010104 Predicted permeases [General function prediction only]; Region: COG0701 526222010105 Predicted permease; Region: DUF318; pfam03773 526222010106 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 526222010107 dimerization interface [polypeptide binding]; other site 526222010108 putative DNA binding site [nucleotide binding]; other site 526222010109 putative Zn2+ binding site [ion binding]; other site 526222010110 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 526222010111 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 526222010112 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 526222010113 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 526222010114 LuxQ, periplasmic; Region: LuxQ-periplasm; pfam09308 526222010115 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 526222010116 PAS fold; Region: PAS_4; pfam08448 526222010117 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 526222010118 putative active site [active] 526222010119 heme pocket [chemical binding]; other site 526222010120 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222010121 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 526222010122 putative active site [active] 526222010123 heme pocket [chemical binding]; other site 526222010124 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 526222010125 dimer interface [polypeptide binding]; other site 526222010126 phosphorylation site [posttranslational modification] 526222010127 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 526222010128 ATP binding site [chemical binding]; other site 526222010129 Mg2+ binding site [ion binding]; other site 526222010130 G-X-G motif; other site 526222010131 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010133 active site 526222010134 phosphorylation site [posttranslational modification] 526222010135 intermolecular recognition site; other site 526222010136 dimerization interface [polypeptide binding]; other site 526222010137 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222010138 metal binding site [ion binding]; metal-binding site 526222010139 active site 526222010140 I-site; other site 526222010141 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 526222010142 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222010143 substrate binding pocket [chemical binding]; other site 526222010144 membrane-bound complex binding site; other site 526222010145 hinge residues; other site 526222010146 GAF domain; Region: GAF; cl15785 526222010147 GAF domain; Region: GAF_2; pfam13185 526222010148 PAS domain S-box; Region: sensory_box; TIGR00229 526222010149 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 526222010150 sensory histidine kinase AtoS; Provisional; Region: PRK11360 526222010151 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 526222010152 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222010153 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 526222010154 dimer interface [polypeptide binding]; other site 526222010155 phosphorylation site [posttranslational modification] 526222010156 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 526222010157 ATP binding site [chemical binding]; other site 526222010158 Mg2+ binding site [ion binding]; other site 526222010159 G-X-G motif; other site 526222010160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010161 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010162 active site 526222010163 phosphorylation site [posttranslational modification] 526222010164 intermolecular recognition site; other site 526222010165 dimerization interface [polypeptide binding]; other site 526222010166 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010168 active site 526222010169 phosphorylation site [posttranslational modification] 526222010170 intermolecular recognition site; other site 526222010171 dimerization interface [polypeptide binding]; other site 526222010172 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 526222010173 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 526222010174 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 526222010175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222010176 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 526222010177 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 526222010178 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 526222010179 alanine racemase; Reviewed; Region: alr; PRK00053 526222010180 active site 526222010181 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 526222010182 dimer interface [polypeptide binding]; other site 526222010183 substrate binding site [chemical binding]; other site 526222010184 catalytic residues [active] 526222010185 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 526222010186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010187 dimer interface [polypeptide binding]; other site 526222010188 conserved gate region; other site 526222010189 putative PBP binding loops; other site 526222010190 ABC-ATPase subunit interface; other site 526222010191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010192 dimer interface [polypeptide binding]; other site 526222010193 conserved gate region; other site 526222010194 putative PBP binding loops; other site 526222010195 ABC-ATPase subunit interface; other site 526222010196 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 526222010197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222010198 Walker A/P-loop; other site 526222010199 ATP binding site [chemical binding]; other site 526222010200 Q-loop/lid; other site 526222010201 ABC transporter signature motif; other site 526222010202 Walker B; other site 526222010203 D-loop; other site 526222010204 H-loop/switch region; other site 526222010205 TOBE domain; Region: TOBE_2; cl01440 526222010206 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 526222010207 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 526222010208 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 526222010209 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222010210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010211 active site 526222010212 phosphorylation site [posttranslational modification] 526222010213 intermolecular recognition site; other site 526222010214 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222010215 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 526222010216 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010217 Zn2+ binding site [ion binding]; other site 526222010218 Mg2+ binding site [ion binding]; other site 526222010219 Cache domain; Region: Cache_2; cl07034 526222010220 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 526222010221 PAS domain; Region: PAS_9; pfam13426 526222010222 putative active site [active] 526222010223 heme pocket [chemical binding]; other site 526222010224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010225 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 526222010226 ATP binding site [chemical binding]; other site 526222010227 Mg2+ binding site [ion binding]; other site 526222010228 G-X-G motif; other site 526222010229 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 526222010230 Sulfate transporter family; Region: Sulfate_transp; cl15842 526222010231 Sulfate transporter family; Region: Sulfate_transp; cl15842 526222010232 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 526222010233 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 526222010234 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222010235 Coenzyme A binding pocket [chemical binding]; other site 526222010236 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 526222010237 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 526222010238 FeS/SAM binding site; other site 526222010239 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 526222010240 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222010241 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 526222010242 Walker A/P-loop; other site 526222010243 ATP binding site [chemical binding]; other site 526222010244 Q-loop/lid; other site 526222010245 ABC transporter signature motif; other site 526222010246 Walker B; other site 526222010247 D-loop; other site 526222010248 H-loop/switch region; other site 526222010249 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010250 dimer interface [polypeptide binding]; other site 526222010251 conserved gate region; other site 526222010252 putative PBP binding loops; other site 526222010253 ABC-ATPase subunit interface; other site 526222010254 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 526222010255 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222010256 substrate binding pocket [chemical binding]; other site 526222010257 membrane-bound complex binding site; other site 526222010258 hinge residues; other site 526222010259 PAS domain S-box; Region: sensory_box; TIGR00229 526222010260 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 526222010261 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 526222010262 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 526222010263 DNA binding residues [nucleotide binding] 526222010264 dimerization interface [polypeptide binding]; other site 526222010265 Protein of unknown function (DUF554); Region: DUF554; cl00784 526222010266 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 526222010267 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 526222010268 dimerization interface [polypeptide binding]; other site 526222010269 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 526222010270 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 526222010271 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 526222010272 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 526222010273 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010274 Zn2+ binding site [ion binding]; other site 526222010275 Mg2+ binding site [ion binding]; other site 526222010276 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222010277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010278 active site 526222010279 phosphorylation site [posttranslational modification] 526222010280 intermolecular recognition site; other site 526222010281 dimerization interface [polypeptide binding]; other site 526222010282 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222010283 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 526222010284 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 526222010285 inhibitor-cofactor binding pocket; inhibition site 526222010286 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222010287 catalytic residue [active] 526222010288 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 526222010289 Two component regulator propeller; Region: Reg_prop; pfam07494 526222010290 Two component regulator propeller; Region: Reg_prop; pfam07494 526222010291 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 526222010292 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 526222010293 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 526222010294 dimer interface [polypeptide binding]; other site 526222010295 phosphorylation site [posttranslational modification] 526222010296 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 526222010297 ATP binding site [chemical binding]; other site 526222010298 Mg2+ binding site [ion binding]; other site 526222010299 G-X-G motif; other site 526222010300 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010302 active site 526222010303 phosphorylation site [posttranslational modification] 526222010304 intermolecular recognition site; other site 526222010305 dimerization interface [polypeptide binding]; other site 526222010306 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 526222010307 PAS domain S-box; Region: sensory_box; TIGR00229 526222010308 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 526222010309 putative active site [active] 526222010310 heme pocket [chemical binding]; other site 526222010311 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222010312 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 526222010313 putative active site [active] 526222010314 heme pocket [chemical binding]; other site 526222010315 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 526222010316 dimer interface [polypeptide binding]; other site 526222010317 phosphorylation site [posttranslational modification] 526222010318 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 526222010319 ATP binding site [chemical binding]; other site 526222010320 Mg2+ binding site [ion binding]; other site 526222010321 G-X-G motif; other site 526222010322 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010323 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010324 active site 526222010325 phosphorylation site [posttranslational modification] 526222010326 intermolecular recognition site; other site 526222010327 dimerization interface [polypeptide binding]; other site 526222010328 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 526222010329 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 526222010330 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 526222010331 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 526222010332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010333 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010334 active site 526222010335 phosphorylation site [posttranslational modification] 526222010336 intermolecular recognition site; other site 526222010337 dimerization interface [polypeptide binding]; other site 526222010338 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 526222010339 Chemotaxis phosphatase CheX; Region: CheX; cl15816 526222010340 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 526222010341 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 526222010342 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 526222010343 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 526222010344 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 526222010345 Cl- selectivity filter; other site 526222010346 Cl- binding residues [ion binding]; other site 526222010347 pore gating glutamate residue; other site 526222010348 dimer interface [polypeptide binding]; other site 526222010349 FOG: CBS domain [General function prediction only]; Region: COG0517 526222010350 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 526222010351 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 526222010352 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010353 Zn2+ binding site [ion binding]; other site 526222010354 Mg2+ binding site [ion binding]; other site 526222010355 Membrane transport protein; Region: Mem_trans; cl09117 526222010356 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 526222010357 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 526222010358 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; cl15357 526222010359 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; cl15357 526222010360 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 526222010361 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 526222010362 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 526222010363 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 526222010364 generic binding surface II; other site 526222010365 generic binding surface I; other site 526222010366 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 526222010367 active site 526222010368 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 526222010369 putative active site [active] 526222010370 dimerization interface [polypeptide binding]; other site 526222010371 putative tRNAtyr binding site [nucleotide binding]; other site 526222010372 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 526222010373 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 526222010374 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 526222010375 anti sigma factor interaction site; other site 526222010376 regulatory phosphorylation site [posttranslational modification]; other site 526222010377 Protein of unknown function (DUF342); Region: DUF342; pfam03961 526222010378 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222010379 flagellar motor protein MotP; Reviewed; Region: PRK06926 526222010380 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 526222010381 flagellar motor protein MotS; Reviewed; Region: PRK06925 526222010382 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222010383 ligand binding site [chemical binding]; other site 526222010384 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 526222010385 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 526222010386 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 526222010387 CHASE4 domain; Region: CHASE4; cl01308 526222010388 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010389 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 526222010390 dimer interface [polypeptide binding]; other site 526222010391 phosphorylation site [posttranslational modification] 526222010392 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 526222010393 ATP binding site [chemical binding]; other site 526222010394 Mg2+ binding site [ion binding]; other site 526222010395 G-X-G motif; other site 526222010396 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 526222010397 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 526222010398 active site 526222010399 HIGH motif; other site 526222010400 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 526222010401 KMSKS motif; other site 526222010402 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 526222010403 tRNA binding surface [nucleotide binding]; other site 526222010404 anticodon binding site; other site 526222010405 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 526222010406 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 526222010407 substrate binding site; other site 526222010408 dimer interface; other site 526222010409 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 526222010410 homotrimer interaction site [polypeptide binding]; other site 526222010411 zinc binding site [ion binding]; other site 526222010412 CDP-binding sites; other site 526222010413 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 526222010414 Putative zinc ribbon domain; Region: DUF164; pfam02591 526222010415 Uncharacterized conserved protein [Function unknown]; Region: COG0327 526222010416 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 526222010417 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 526222010418 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 526222010419 active site 526222010420 HIGH motif; other site 526222010421 nucleotide binding site [chemical binding]; other site 526222010422 CAAX protease self-immunity; Region: Abi; cl00558 526222010423 Flagellin N-methylase; Region: FliB; cl00497 526222010424 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 526222010425 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 526222010426 active site 526222010427 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 526222010428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222010429 Helix-turn-helix domains; Region: HTH; cl00088 526222010430 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 526222010431 dimerization interface [polypeptide binding]; other site 526222010432 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 526222010433 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 526222010434 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010435 dimer interface [polypeptide binding]; other site 526222010436 conserved gate region; other site 526222010437 putative PBP binding loops; other site 526222010438 ABC-ATPase subunit interface; other site 526222010439 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010440 dimer interface [polypeptide binding]; other site 526222010441 conserved gate region; other site 526222010442 putative PBP binding loops; other site 526222010443 ABC-ATPase subunit interface; other site 526222010444 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 526222010445 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 526222010446 substrate binding pocket [chemical binding]; other site 526222010447 membrane-bound complex binding site; other site 526222010448 hinge residues; other site 526222010449 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 526222010450 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 526222010451 Walker A/P-loop; other site 526222010452 ATP binding site [chemical binding]; other site 526222010453 Q-loop/lid; other site 526222010454 ABC transporter signature motif; other site 526222010455 Walker B; other site 526222010456 D-loop; other site 526222010457 H-loop/switch region; other site 526222010458 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222010459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010460 active site 526222010461 phosphorylation site [posttranslational modification] 526222010462 intermolecular recognition site; other site 526222010463 dimerization interface [polypeptide binding]; other site 526222010464 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 526222010465 Walker A motif; other site 526222010466 ATP binding site [chemical binding]; other site 526222010467 Walker B motif; other site 526222010468 arginine finger; other site 526222010469 Helix-turn-helix domains; Region: HTH; cl00088 526222010470 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 526222010471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222010472 Walker A/P-loop; other site 526222010473 ATP binding site [chemical binding]; other site 526222010474 Q-loop/lid; other site 526222010475 ABC transporter signature motif; other site 526222010476 Walker B; other site 526222010477 D-loop; other site 526222010478 H-loop/switch region; other site 526222010479 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 526222010480 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010481 dimer interface [polypeptide binding]; other site 526222010482 conserved gate region; other site 526222010483 putative PBP binding loops; other site 526222010484 ABC-ATPase subunit interface; other site 526222010485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010486 dimer interface [polypeptide binding]; other site 526222010487 conserved gate region; other site 526222010488 putative PBP binding loops; other site 526222010489 ABC-ATPase subunit interface; other site 526222010490 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 526222010491 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 526222010492 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 526222010493 Cache domain; Region: Cache_2; cl07034 526222010494 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 526222010495 dimerization interface [polypeptide binding]; other site 526222010496 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010497 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010498 dimer interface [polypeptide binding]; other site 526222010499 putative CheW interface [polypeptide binding]; other site 526222010500 seryl-tRNA synthetase; Provisional; Region: PRK05431 526222010501 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 526222010502 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 bound...; Region: SerRS_core; cd00770 526222010503 dimer interface [polypeptide binding]; other site 526222010504 active site 526222010505 motif 1; other site 526222010506 motif 2; other site 526222010507 motif 3; other site 526222010508 Competence-damaged protein; Region: CinA; cl00666 526222010509 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 526222010510 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 526222010511 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 526222010512 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 526222010513 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 526222010514 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 526222010515 protein binding site [polypeptide binding]; other site 526222010516 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 526222010517 Peptidase family M48; Region: Peptidase_M48; cl12018 526222010518 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 526222010519 Cache domain; Region: Cache_2; cl07034 526222010520 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 526222010521 PAS fold; Region: PAS_4; pfam08448 526222010522 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 526222010523 PAS fold; Region: PAS_4; pfam08448 526222010524 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 526222010525 putative active site [active] 526222010526 heme pocket [chemical binding]; other site 526222010527 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 526222010528 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 526222010529 ATP binding site [chemical binding]; other site 526222010530 Mg2+ binding site [ion binding]; other site 526222010531 G-X-G motif; other site 526222010532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 526222010533 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 526222010534 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010535 active site 526222010536 phosphorylation site [posttranslational modification] 526222010537 intermolecular recognition site; other site 526222010538 dimerization interface [polypeptide binding]; other site 526222010539 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 526222010540 binding surface 526222010541 TPR motif; other site 526222010542 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222010543 TPR repeat; Region: TPR_11; pfam13414 526222010544 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 526222010545 binding surface 526222010546 TPR motif; other site 526222010547 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 526222010548 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 526222010549 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 526222010550 tandem repeat interface [polypeptide binding]; other site 526222010551 oligomer interface [polypeptide binding]; other site 526222010552 active site residues [active] 526222010553 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 526222010554 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 526222010555 RNA binding site [nucleotide binding]; other site 526222010556 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 526222010557 RNA binding site [nucleotide binding]; other site 526222010558 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 526222010559 RNA binding site [nucleotide binding]; other site 526222010560 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 526222010561 RNA binding site [nucleotide binding]; other site 526222010562 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 526222010563 RNA binding site [nucleotide binding]; other site 526222010564 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 of...; Region: S1_RPS1_repeat_hs4; cd05692 526222010565 RNA binding site [nucleotide binding]; other site 526222010566 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 526222010567 PhoU domain; Region: PhoU; pfam01895 526222010568 PhoU domain; Region: PhoU; pfam01895 526222010569 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 526222010570 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 526222010571 Walker A/P-loop; other site 526222010572 ATP binding site [chemical binding]; other site 526222010573 Q-loop/lid; other site 526222010574 ABC transporter signature motif; other site 526222010575 Walker B; other site 526222010576 D-loop; other site 526222010577 H-loop/switch region; other site 526222010578 DsrE/DsrF-like family; Region: DrsE; cl00672 526222010579 AMIN domain; Region: AMIN; pfam11741 526222010580 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 526222010581 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 526222010582 homodimer interface [polypeptide binding]; other site 526222010583 active site pocket [active] 526222010584 Predicted transcriptional regulator [Transcription]; Region: COG4957 526222010585 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 526222010586 flagellar motor protein MotS; Reviewed; Region: PRK06925 526222010587 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222010588 ligand binding site [chemical binding]; other site 526222010589 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222010590 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010591 active site 526222010592 phosphorylation site [posttranslational modification] 526222010593 intermolecular recognition site; other site 526222010594 dimerization interface [polypeptide binding]; other site 526222010595 PAS fold; Region: PAS; pfam00989 526222010596 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 526222010597 putative active site [active] 526222010598 heme pocket [chemical binding]; other site 526222010599 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222010600 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 526222010601 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 526222010602 dimer interface [polypeptide binding]; other site 526222010603 phosphorylation site [posttranslational modification] 526222010604 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 526222010605 ATP binding site [chemical binding]; other site 526222010606 Mg2+ binding site [ion binding]; other site 526222010607 G-X-G motif; other site 526222010608 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 526222010609 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 526222010610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222010611 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010613 active site 526222010614 phosphorylation site [posttranslational modification] 526222010615 intermolecular recognition site; other site 526222010616 dimerization interface [polypeptide binding]; other site 526222010617 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 526222010618 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 526222010619 active site residue [active] 526222010620 DoxX; Region: DoxX; cl00976 526222010621 helicase 45; Provisional; Region: PTZ00424 526222010622 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 526222010623 ATP binding site [chemical binding]; other site 526222010624 Mg++ binding site [ion binding]; other site 526222010625 motif III; other site 526222010626 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 526222010627 nucleotide binding region [chemical binding]; other site 526222010628 ATP-binding site [chemical binding]; other site 526222010629 aspartate aminotransferase; Provisional; Region: PRK06836 526222010630 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 526222010631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222010632 homodimer interface [polypeptide binding]; other site 526222010633 catalytic residue [active] 526222010634 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222010635 Helix-turn-helix domains; Region: HTH; cl00088 526222010636 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 526222010637 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 526222010638 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 526222010639 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 526222010640 dimer interface [polypeptide binding]; other site 526222010641 phosphorylation site [posttranslational modification] 526222010642 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 526222010643 ATP binding site [chemical binding]; other site 526222010644 Mg2+ binding site [ion binding]; other site 526222010645 G-X-G motif; other site 526222010646 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 526222010647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010648 active site 526222010649 phosphorylation site [posttranslational modification] 526222010650 intermolecular recognition site; other site 526222010651 dimerization interface [polypeptide binding]; other site 526222010652 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 526222010653 DNA binding site [nucleotide binding] 526222010654 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222010655 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222010656 putative substrate translocation pore; other site 526222010657 Protein of unknown function DUF45; Region: DUF45; cl00636 526222010658 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 526222010659 anti sigma factor interaction site; other site 526222010660 regulatory phosphorylation site [posttranslational modification]; other site 526222010661 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222010662 CheD chemotactic sensory transduction; Region: CheD; cl00810 526222010663 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 526222010664 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 526222010665 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 526222010666 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 526222010667 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 526222010668 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 526222010669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010670 Zn2+ binding site [ion binding]; other site 526222010671 Mg2+ binding site [ion binding]; other site 526222010672 Archaeal ATPase; Region: Arch_ATPase; pfam01637 526222010673 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 526222010674 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 526222010675 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 526222010676 homodimer interface [polypeptide binding]; other site 526222010677 NADP binding site [chemical binding]; other site 526222010678 substrate binding site [chemical binding]; other site 526222010679 enolase; Provisional; Region: eno; PRK00077 526222010680 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 526222010681 dimer interface [polypeptide binding]; other site 526222010682 metal binding site [ion binding]; metal-binding site 526222010683 substrate binding pocket [chemical binding]; other site 526222010684 Type III pantothenate kinase; Region: Pan_kinase; cl09130 526222010685 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 526222010686 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 526222010687 DNA binding residues [nucleotide binding] 526222010688 heat shock protein 90; Provisional; Region: PRK05218 526222010689 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 526222010690 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 526222010691 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010693 active site 526222010694 phosphorylation site [posttranslational modification] 526222010695 intermolecular recognition site; other site 526222010696 dimerization interface [polypeptide binding]; other site 526222010697 LysE type translocator; Region: LysE; cl00565 526222010698 AIR carboxylase; Region: AIRC; cl00310 526222010699 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 526222010700 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 526222010701 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222010702 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 526222010703 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010704 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010705 dimer interface [polypeptide binding]; other site 526222010706 putative CheW interface [polypeptide binding]; other site 526222010707 Cache domain; Region: Cache_1; pfam02743 526222010708 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 526222010709 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 526222010710 metal binding triad; other site 526222010711 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 526222010712 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222010713 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 526222010714 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 526222010715 Nitrogen regulatory protein P-II; Region: P-II; cl00412 526222010716 Nitrogen regulatory protein P-II; Region: P-II; smart00938 526222010717 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 526222010718 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 526222010719 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 526222010720 putative metal binding residues [ion binding]; other site 526222010721 GAF domain; Region: GAF; cl15785 526222010722 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222010723 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 526222010724 Walker A motif; other site 526222010725 ATP binding site [chemical binding]; other site 526222010726 Walker B motif; other site 526222010727 arginine finger; other site 526222010728 Helix-turn-helix domains; Region: HTH; cl00088 526222010729 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 526222010730 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 526222010731 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 526222010732 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 526222010733 PAS domain; Region: PAS_9; pfam13426 526222010734 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010735 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010736 dimer interface [polypeptide binding]; other site 526222010737 putative CheW interface [polypeptide binding]; other site 526222010738 UbiA prenyltransferase family; Region: UbiA; cl00337 526222010739 Protein of unknown function, DUF606; Region: DUF606; cl01273 526222010740 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 526222010741 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 526222010742 active site 526222010743 HIGH motif; other site 526222010744 dimer interface [polypeptide binding]; other site 526222010745 KMSKS motif; other site 526222010746 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 526222010747 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 526222010748 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 526222010749 putative active site [active] 526222010750 metal binding site [ion binding]; metal-binding site 526222010751 homodimer binding site [polypeptide binding]; other site 526222010752 phosphodiesterase; Provisional; Region: PRK12704 526222010753 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222010754 Zn2+ binding site [ion binding]; other site 526222010755 Mg2+ binding site [ion binding]; other site 526222010756 Cell division protein ZapA; Region: ZapA; cl01146 526222010757 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 526222010758 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 526222010759 Substrate binding site; other site 526222010760 Mg++ binding site; other site 526222010761 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 526222010762 active site 526222010763 substrate binding site [chemical binding]; other site 526222010764 CoA binding site [chemical binding]; other site 526222010765 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 526222010766 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 526222010767 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 526222010768 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 526222010769 alpha subunit interaction interface [polypeptide binding]; other site 526222010770 Walker A motif; other site 526222010771 ATP binding site [chemical binding]; other site 526222010772 Walker B motif; other site 526222010773 inhibitor binding site; inhibition site 526222010774 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 526222010775 ATP synthase; Region: ATP-synt; cl00365 526222010776 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 526222010777 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 526222010778 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 526222010779 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 526222010780 beta subunit interaction interface [polypeptide binding]; other site 526222010781 Walker A motif; other site 526222010782 ATP binding site [chemical binding]; other site 526222010783 Walker B motif; other site 526222010784 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 526222010785 Plant ATP synthase F0; Region: YMF19; cl07975 526222010786 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 526222010787 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 526222010788 Plant ATP synthase F0; Region: YMF19; cl07975 526222010789 Plant ATP synthase F0; Region: YMF19; cl07975 526222010790 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 526222010791 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 526222010792 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 526222010793 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 526222010794 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 526222010795 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 526222010796 rod shape-determining protein MreC; Provisional; Region: PRK13922 526222010797 rod shape-determining protein MreC; Region: MreC; pfam04085 526222010798 rod shape-determining protein MreB; Provisional; Region: PRK13927 526222010799 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 526222010800 ATP binding site [chemical binding]; other site 526222010801 profilin binding site; other site 526222010802 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 526222010803 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 526222010804 PAS domain; Region: PAS_9; pfam13426 526222010805 putative active site [active] 526222010806 heme pocket [chemical binding]; other site 526222010807 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222010808 metal binding site [ion binding]; metal-binding site 526222010809 active site 526222010810 I-site; other site 526222010811 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 526222010812 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 526222010813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222010814 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 526222010815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222010816 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 526222010817 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 526222010818 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010819 dimer interface [polypeptide binding]; other site 526222010820 conserved gate region; other site 526222010821 putative PBP binding loops; other site 526222010822 ABC-ATPase subunit interface; other site 526222010823 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 526222010824 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222010825 dimer interface [polypeptide binding]; other site 526222010826 conserved gate region; other site 526222010827 putative PBP binding loops; other site 526222010828 ABC-ATPase subunit interface; other site 526222010829 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 526222010830 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 526222010831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222010832 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 526222010833 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 526222010834 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 526222010835 active site 526222010836 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222010837 Helix-turn-helix domains; Region: HTH; cl00088 526222010838 Phospholipid methyltransferase; Region: PEMT; cl00763 526222010839 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 526222010840 S-adenosylmethionine binding site [chemical binding]; other site 526222010841 Mg chelatase-related protein; Region: TIGR00368 526222010842 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 526222010843 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 526222010844 Walker A motif; other site 526222010845 ATP binding site [chemical binding]; other site 526222010846 Walker B motif; other site 526222010847 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 526222010848 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 526222010849 octamerization interface [polypeptide binding]; other site 526222010850 diferric-oxygen binding site [ion binding]; other site 526222010851 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 526222010852 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 526222010853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222010854 homodimer interface [polypeptide binding]; other site 526222010855 catalytic residue [active] 526222010856 cobyric acid synthase; Provisional; Region: PRK00784 526222010857 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222010858 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 526222010859 catalytic triad [active] 526222010860 Cupin domain; Region: Cupin_2; cl09118 526222010861 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 526222010862 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 526222010863 FeS/SAM binding site; other site 526222010864 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 526222010865 Tetratricopeptide repeat; Region: TPR_12; pfam13424 526222010866 PAS domain S-box; Region: sensory_box; TIGR00229 526222010867 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 526222010868 putative active site [active] 526222010869 heme pocket [chemical binding]; other site 526222010870 GAF domain; Region: GAF; cl15785 526222010871 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 526222010872 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 526222010873 dimer interface [polypeptide binding]; other site 526222010874 phosphorylation site [posttranslational modification] 526222010875 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 526222010876 ATP binding site [chemical binding]; other site 526222010877 Mg2+ binding site [ion binding]; other site 526222010878 G-X-G motif; other site 526222010879 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010880 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010881 active site 526222010882 phosphorylation site [posttranslational modification] 526222010883 intermolecular recognition site; other site 526222010884 dimerization interface [polypeptide binding]; other site 526222010885 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 526222010886 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 526222010887 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 526222010888 Catalytic site [active] 526222010889 GTP-binding protein LepA; Provisional; Region: PRK05433 526222010890 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 526222010891 G1 box; other site 526222010892 putative GEF interaction site [polypeptide binding]; other site 526222010893 GTP/Mg2+ binding site [chemical binding]; other site 526222010894 Switch I region; other site 526222010895 G2 box; other site 526222010896 G3 box; other site 526222010897 Switch II region; other site 526222010898 G4 box; other site 526222010899 G5 box; other site 526222010900 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 526222010901 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 526222010902 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 526222010903 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 526222010904 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 526222010905 FAD binding pocket [chemical binding]; other site 526222010906 FAD binding motif [chemical binding]; other site 526222010907 phosphate binding motif [ion binding]; other site 526222010908 beta-alpha-beta structure motif; other site 526222010909 NAD binding pocket [chemical binding]; other site 526222010910 Iron coordination center [ion binding]; other site 526222010911 putative oxidoreductase; Provisional; Region: PRK12831 526222010912 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222010913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222010914 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 526222010915 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 526222010916 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 526222010917 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 526222010918 homotrimer interaction site [polypeptide binding]; other site 526222010919 putative active site [active] 526222010920 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 526222010921 YheO-like PAS domain; Region: PAS_6; pfam08348 526222010922 Helix-turn-helix domains; Region: HTH; cl00088 526222010923 GAF domain; Region: GAF_2; pfam13185 526222010924 GAF domain; Region: GAF; cl15785 526222010925 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222010926 metal binding site [ion binding]; metal-binding site 526222010927 active site 526222010928 I-site; other site 526222010929 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222010930 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 526222010931 active site 526222010932 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 526222010933 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 526222010934 PAS domain; Region: PAS_9; pfam13426 526222010935 putative active site [active] 526222010936 heme pocket [chemical binding]; other site 526222010937 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222010938 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 526222010939 Walker A motif; other site 526222010940 ATP binding site [chemical binding]; other site 526222010941 Walker B motif; other site 526222010942 arginine finger; other site 526222010943 Helix-turn-helix domains; Region: HTH; cl00088 526222010944 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 526222010945 Response regulator receiver domain; Region: Response_reg; pfam00072 526222010946 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222010947 active site 526222010948 phosphorylation site [posttranslational modification] 526222010949 intermolecular recognition site; other site 526222010950 dimerization interface [polypeptide binding]; other site 526222010951 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 526222010952 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 526222010953 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 526222010954 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 526222010955 transmembrane helices; other site 526222010956 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 526222010957 putative trimer interface [polypeptide binding]; other site 526222010958 putative CoA binding site [chemical binding]; other site 526222010959 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 526222010960 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; cl15357 526222010961 transmembrane helices; other site 526222010962 Cache domain; Region: Cache_1; pfam02743 526222010963 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 526222010964 PAS fold; Region: PAS_4; pfam08448 526222010965 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010966 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010967 dimer interface [polypeptide binding]; other site 526222010968 putative CheW interface [polypeptide binding]; other site 526222010969 Cache domain; Region: Cache_1; pfam02743 526222010970 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 526222010971 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 526222010972 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010974 dimer interface [polypeptide binding]; other site 526222010975 putative CheW interface [polypeptide binding]; other site 526222010976 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 526222010977 ATP cone domain; Region: ATP-cone; pfam03477 526222010978 Class III ribonucleotide reductase; Region: RNR_III; cd01675 526222010979 effector binding site; other site 526222010980 active site 526222010981 Zn binding site [ion binding]; other site 526222010982 glycine loop; other site 526222010983 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 526222010984 dimerization interface [polypeptide binding]; other site 526222010985 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222010986 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222010987 dimer interface [polypeptide binding]; other site 526222010988 putative CheW interface [polypeptide binding]; other site 526222010989 Helix-turn-helix domains; Region: HTH; cl00088 526222010990 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 526222010991 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 526222010992 putative deacylase active site [active] 526222010993 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 526222010994 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 526222010995 Walker A/P-loop; other site 526222010996 ATP binding site [chemical binding]; other site 526222010997 Q-loop/lid; other site 526222010998 ABC transporter signature motif; other site 526222010999 Walker B; other site 526222011000 D-loop; other site 526222011001 H-loop/switch region; other site 526222011002 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 526222011003 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 526222011004 Walker A/P-loop; other site 526222011005 ATP binding site [chemical binding]; other site 526222011006 Q-loop/lid; other site 526222011007 ABC transporter signature motif; other site 526222011008 Walker B; other site 526222011009 D-loop; other site 526222011010 H-loop/switch region; other site 526222011011 Cobalt transport protein; Region: CbiQ; cl00463 526222011012 Domain of unknown function (DUF296); Region: DUF296; cl00720 526222011013 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 526222011014 Protein of unknown function (DUF4125); Region: DUF4125; pfam13526 526222011015 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 526222011016 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 526222011017 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 526222011018 Walker A motif; other site 526222011019 ATP binding site [chemical binding]; other site 526222011020 Walker B motif; other site 526222011021 arginine finger; other site 526222011022 Helix-turn-helix domains; Region: HTH; cl00088 526222011023 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 526222011024 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 526222011025 dimer interface [polypeptide binding]; other site 526222011026 active site 526222011027 glycine loop; other site 526222011028 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 526222011029 4Fe-4S binding domain; Region: Fer4; cl02805 526222011030 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 526222011031 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 526222011032 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 526222011033 PAS domain; Region: PAS_9; pfam13426 526222011034 putative active site [active] 526222011035 heme pocket [chemical binding]; other site 526222011036 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222011037 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 526222011038 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 526222011039 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 526222011040 Walker A/P-loop; other site 526222011041 ATP binding site [chemical binding]; other site 526222011042 Q-loop/lid; other site 526222011043 ABC transporter signature motif; other site 526222011044 Walker B; other site 526222011045 D-loop; other site 526222011046 H-loop/switch region; other site 526222011047 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 526222011048 FtsX-like permease family; Region: FtsX; cl15850 526222011049 putative mechanosensitive channel protein; Provisional; Region: PRK11465 526222011050 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222011051 Uncharacterized conserved protein [Function unknown]; Region: COG1284 526222011052 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 526222011053 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 526222011054 EamA-like transporter family; Region: EamA; cl01037 526222011055 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222011056 EamA-like transporter family; Region: EamA; cl01037 526222011057 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 526222011058 PAS fold; Region: PAS_3; pfam08447 526222011059 putative active site [active] 526222011060 heme pocket [chemical binding]; other site 526222011061 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 526222011062 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 526222011063 Walker A motif; other site 526222011064 ATP binding site [chemical binding]; other site 526222011065 Walker B motif; other site 526222011066 arginine finger; other site 526222011067 Helix-turn-helix domains; Region: HTH; cl00088 526222011068 EamA-like transporter family; Region: EamA; cl01037 526222011069 EamA-like transporter family; Region: EamA; cl01037 526222011070 OsmC-like protein; Region: OsmC; cl00767 526222011071 DsrE/DsrF-like family; Region: DrsE; cl00672 526222011072 DsrE/DsrF-like family; Region: DrsE; cl00672 526222011073 DsrE/DsrF-like family; Region: DrsE; cl00672 526222011074 Sulfatase; Region: Sulfatase; cl10460 526222011075 Sulfatase; Region: Sulfatase; cl10460 526222011076 BCCT family transporter; Region: BCCT; cl00569 526222011077 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 526222011078 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 526222011079 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 526222011080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011081 catalytic residue [active] 526222011082 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 526222011083 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 526222011084 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 526222011085 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 526222011086 dimer interface [polypeptide binding]; other site 526222011087 conserved gate region; other site 526222011088 putative PBP binding loops; other site 526222011089 ABC-ATPase subunit interface; other site 526222011090 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 526222011091 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 526222011092 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 526222011093 Walker A/P-loop; other site 526222011094 ATP binding site [chemical binding]; other site 526222011095 Q-loop/lid; other site 526222011096 ABC transporter signature motif; other site 526222011097 Walker B; other site 526222011098 D-loop; other site 526222011099 H-loop/switch region; other site 526222011100 TOBE domain; Region: TOBE_2; cl01440 526222011101 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 526222011102 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222011103 Helix-turn-helix domains; Region: HTH; cl00088 526222011104 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 526222011105 putative effector binding pocket; other site 526222011106 dimerization interface [polypeptide binding]; other site 526222011107 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 526222011108 Transcriptional regulators [Transcription]; Region: FadR; COG2186 526222011109 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222011110 DNA-binding site [nucleotide binding]; DNA binding site 526222011111 FCD domain; Region: FCD; cl11656 526222011112 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 526222011113 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 526222011114 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 526222011115 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 526222011116 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 526222011117 dimer interface [polypeptide binding]; other site 526222011118 active site 526222011119 metal binding site [ion binding]; metal-binding site 526222011120 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 526222011121 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 526222011122 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 526222011123 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222011124 putative substrate translocation pore; other site 526222011125 Cyclophilin-like; Region: Cyclophil_like; cl00950 526222011126 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 526222011127 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 526222011128 Cupin domain; Region: Cupin_2; cl09118 526222011129 Cyclophilin-like; Region: Cyclophil_like; cl00950 526222011130 Cyclophilin-like; Region: Cyclophil_like; cl00950 526222011131 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 526222011132 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 526222011133 glutaminase active site [active] 526222011134 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 526222011135 dimer interface [polypeptide binding]; other site 526222011136 active site 526222011137 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 526222011138 dimer interface [polypeptide binding]; other site 526222011139 active site 526222011140 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 526222011141 active site 526222011142 dimerization interface [polypeptide binding]; other site 526222011143 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222011144 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 526222011145 dimer interface [polypeptide binding]; other site 526222011146 phosphorylation site [posttranslational modification] 526222011147 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 526222011148 ATP binding site [chemical binding]; other site 526222011149 Mg2+ binding site [ion binding]; other site 526222011150 G-X-G motif; other site 526222011151 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 526222011152 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 526222011153 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 526222011154 FeS/SAM binding site; other site 526222011155 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cl03181 526222011156 Sporulation related domain; Region: SPOR; cl10051 526222011157 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222011158 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 526222011159 putative active site [active] 526222011160 Domain of unknown function (DUF202); Region: DUF202; cl09954 526222011161 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 526222011162 putative active site [active] 526222011163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 526222011164 AMIN domain; Region: AMIN; pfam11741 526222011165 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 526222011166 active site 526222011167 metal binding site [ion binding]; metal-binding site 526222011168 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 526222011169 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 526222011170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 526222011171 active site 526222011172 phosphorylation site [posttranslational modification] 526222011173 intermolecular recognition site; other site 526222011174 dimerization interface [polypeptide binding]; other site 526222011175 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011177 active site 526222011178 phosphorylation site [posttranslational modification] 526222011179 intermolecular recognition site; other site 526222011180 dimerization interface [polypeptide binding]; other site 526222011181 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 526222011182 Predicted transcriptional regulator [Transcription]; Region: COG4957 526222011183 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 526222011184 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 526222011185 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 526222011186 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 526222011187 putative metal binding site; other site 526222011188 Cupin domain; Region: Cupin_2; cl09118 526222011189 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 526222011190 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 526222011191 inhibitor-cofactor binding pocket; inhibition site 526222011192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011193 catalytic residue [active] 526222011194 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; cl09108 526222011195 phosphate binding site [ion binding]; other site 526222011196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011197 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 526222011198 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 526222011199 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 526222011200 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 526222011201 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 526222011202 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 526222011203 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 526222011204 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 526222011205 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 526222011206 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 526222011207 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 526222011208 structural tetrad; other site 526222011209 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 526222011210 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 526222011211 ATP binding site [chemical binding]; other site 526222011212 Mg2+ binding site [ion binding]; other site 526222011213 G-X-G motif; other site 526222011214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011215 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011216 active site 526222011217 phosphorylation site [posttranslational modification] 526222011218 intermolecular recognition site; other site 526222011219 dimerization interface [polypeptide binding]; other site 526222011220 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 526222011221 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 526222011222 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 526222011223 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 526222011224 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 526222011225 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 526222011226 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 526222011227 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 526222011228 putative active site [active] 526222011229 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 526222011230 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 526222011231 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 526222011232 active site 526222011233 dimer interface [polypeptide binding]; other site 526222011234 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 526222011235 Ligand Binding Site [chemical binding]; other site 526222011236 Molecular Tunnel; other site 526222011237 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 526222011238 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 526222011239 active site 526222011240 metal binding site [ion binding]; metal-binding site 526222011241 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 526222011242 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222011243 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222011244 extended (e) SDRs; Region: SDR_e; cd08946 526222011245 NAD(P) binding site [chemical binding]; other site 526222011246 active site 526222011247 substrate binding site [chemical binding]; other site 526222011248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011249 WbqC-like protein family; Region: WbqC; pfam08889 526222011250 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 526222011251 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 526222011252 Ligand binding site; other site 526222011253 Putative Catalytic site; other site 526222011254 DXD motif; other site 526222011255 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 526222011256 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 526222011257 inhibitor-cofactor binding pocket; inhibition site 526222011258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011259 catalytic residue [active] 526222011260 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 526222011261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011262 NDP-hexose 2,3-dehydratase; Region: Hexose_dehydrat; pfam03559 526222011263 NDP-hexose 2,3-dehydratase; Region: Hexose_dehydrat; pfam03559 526222011264 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222011265 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 526222011266 putative ADP-binding pocket [chemical binding]; other site 526222011267 Bacterial sugar transferase; Region: Bac_transf; cl00939 526222011268 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 526222011269 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 526222011270 putative trimer interface [polypeptide binding]; other site 526222011271 putative CoA binding site [chemical binding]; other site 526222011272 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 526222011273 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 526222011274 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 526222011275 inhibitor-cofactor binding pocket; inhibition site 526222011276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011277 catalytic residue [active] 526222011278 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 526222011279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011280 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 526222011281 NAD(P) binding site [chemical binding]; other site 526222011282 homodimer interface [polypeptide binding]; other site 526222011283 substrate binding site [chemical binding]; other site 526222011284 active site 526222011285 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 526222011286 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 526222011287 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 526222011288 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 526222011289 NodB motif; other site 526222011290 active site 526222011291 catalytic site [active] 526222011292 metal binding site [ion binding]; metal-binding site 526222011293 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 526222011294 dimerization interface [polypeptide binding]; other site 526222011295 putative DNA binding site [nucleotide binding]; other site 526222011296 putative Zn2+ binding site [ion binding]; other site 526222011297 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 526222011298 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 526222011299 inhibitor-cofactor binding pocket; inhibition site 526222011300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011301 catalytic residue [active] 526222011302 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 526222011303 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 526222011304 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 526222011305 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222011306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011307 NAD(P) binding site [chemical binding]; other site 526222011308 active site 526222011309 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 526222011310 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 526222011311 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222011312 Walker A/P-loop; other site 526222011313 ATP binding site [chemical binding]; other site 526222011314 Q-loop/lid; other site 526222011315 ABC transporter signature motif; other site 526222011316 Walker B; other site 526222011317 D-loop; other site 526222011318 H-loop/switch region; other site 526222011319 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 526222011320 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 526222011321 NAD(P) binding site [chemical binding]; other site 526222011322 homodimer interface [polypeptide binding]; other site 526222011323 substrate binding site [chemical binding]; other site 526222011324 active site 526222011325 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 526222011326 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 526222011327 inhibitor-cofactor binding pocket; inhibition site 526222011328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011329 catalytic residue [active] 526222011330 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 526222011331 ligand binding site; other site 526222011332 tetramer interface; other site 526222011333 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 526222011334 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 526222011335 pseudaminic acid synthase; Region: PseI; TIGR03586 526222011336 NeuB family; Region: NeuB; cl00496 526222011337 SAF domain; Region: SAF; cl00555 526222011338 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 526222011339 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222011340 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 526222011341 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 526222011342 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 526222011343 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 526222011344 DNA-binding interface [nucleotide binding]; DNA binding site 526222011345 putative transposase OrfB; Reviewed; Region: PHA02517 526222011346 HTH-like domain; Region: HTH_21; pfam13276 526222011347 Integrase core domain; Region: rve; cl01316 526222011348 Integrase core domain; Region: rve_3; cl15866 526222011349 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 526222011350 S-adenosylmethionine binding site [chemical binding]; other site 526222011351 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222011352 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 526222011353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011354 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 526222011355 OpgC protein; Region: OpgC_C; cl00792 526222011356 Acyltransferase family; Region: Acyl_transf_3; pfam01757 526222011357 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 526222011358 Type II/IV secretion system protein; Region: T2SE; pfam00437 526222011359 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 526222011360 Walker A motif; other site 526222011361 ATP binding site [chemical binding]; other site 526222011362 Walker B motif; other site 526222011363 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 526222011364 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 526222011365 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 526222011366 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 526222011367 CAAX protease self-immunity; Region: Abi; cl00558 526222011368 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 526222011369 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 526222011370 putative active site [active] 526222011371 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 526222011372 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 526222011373 dimer interface [polypeptide binding]; other site 526222011374 active site 526222011375 CoA binding pocket [chemical binding]; other site 526222011376 AAA domain; Region: AAA_33; pfam13671 526222011377 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 important for the assimilation of...; Region: APSK; cd02027 526222011378 ligand-binding site [chemical binding]; other site 526222011379 Mechanosensitive ion channel; Region: MS_channel; pfam00924 526222011380 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 526222011381 active site 526222011382 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 526222011383 homodimer interface [polypeptide binding]; other site 526222011384 DNA repair protein RadA; Provisional; Region: PRK11823 526222011385 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222011386 Walker A motif; other site 526222011387 ATP binding site [chemical binding]; other site 526222011388 Walker B motif; other site 526222011389 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 526222011390 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 526222011391 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 526222011392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 526222011393 active site 526222011394 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 526222011395 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222011396 Coenzyme A binding pocket [chemical binding]; other site 526222011397 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 526222011398 catalytic residues [active] 526222011399 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 526222011400 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 526222011401 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 526222011402 substrate binding pocket [chemical binding]; other site 526222011403 dimer interface [polypeptide binding]; other site 526222011404 inhibitor binding site; inhibition site 526222011405 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 526222011406 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 526222011407 B12 binding site [chemical binding]; other site 526222011408 cobalt ligand [ion binding]; other site 526222011409 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 526222011410 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 526222011411 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 526222011412 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 526222011413 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 526222011414 DNA binding residues [nucleotide binding] 526222011415 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 526222011416 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 526222011417 binding surface 526222011418 Tetratricopeptide repeat; Region: TPR_16; pfam13432 526222011419 TPR motif; other site 526222011420 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 526222011421 TPR motif; other site 526222011422 binding surface 526222011423 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 526222011424 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 526222011425 binding surface 526222011426 TPR motif; other site 526222011427 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 526222011428 transketolase; Reviewed; Region: PRK05899 526222011429 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 526222011430 TPP-binding site [chemical binding]; other site 526222011431 dimer interface [polypeptide binding]; other site 526222011432 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 526222011433 PYR/PP interface [polypeptide binding]; other site 526222011434 dimer interface [polypeptide binding]; other site 526222011435 TPP binding site [chemical binding]; other site 526222011436 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 526222011437 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222011438 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 526222011439 putative active site [active] 526222011440 heme pocket [chemical binding]; other site 526222011441 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 526222011442 dimer interface [polypeptide binding]; other site 526222011443 phosphorylation site [posttranslational modification] 526222011444 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 526222011445 ATP binding site [chemical binding]; other site 526222011446 Mg2+ binding site [ion binding]; other site 526222011447 G-X-G motif; other site 526222011448 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011449 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011450 active site 526222011451 phosphorylation site [posttranslational modification] 526222011452 intermolecular recognition site; other site 526222011453 dimerization interface [polypeptide binding]; other site 526222011454 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 526222011455 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 526222011456 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 526222011457 Ligand binding site; other site 526222011458 Putative Catalytic site; other site 526222011459 DXD motif; other site 526222011460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011461 TIGR03545 family protein; Region: TIGR03545 526222011462 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 526222011463 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 526222011464 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 526222011465 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 526222011466 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 526222011467 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 526222011468 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 526222011469 dimerization interface [polypeptide binding]; other site 526222011470 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 526222011471 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 526222011472 dimer interface [polypeptide binding]; other site 526222011473 phosphorylation site [posttranslational modification] 526222011474 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 526222011475 ATP binding site [chemical binding]; other site 526222011476 Mg2+ binding site [ion binding]; other site 526222011477 G-X-G motif; other site 526222011478 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011480 active site 526222011481 phosphorylation site [posttranslational modification] 526222011482 intermolecular recognition site; other site 526222011483 dimerization interface [polypeptide binding]; other site 526222011484 PAS domain S-box; Region: sensory_box; TIGR00229 526222011485 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 526222011486 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222011487 Zn2+ binding site [ion binding]; other site 526222011488 Mg2+ binding site [ion binding]; other site 526222011489 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222011490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011491 active site 526222011492 phosphorylation site [posttranslational modification] 526222011493 intermolecular recognition site; other site 526222011494 dimerization interface [polypeptide binding]; other site 526222011495 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 526222011496 Walker A motif; other site 526222011497 ATP binding site [chemical binding]; other site 526222011498 Walker B motif; other site 526222011499 arginine finger; other site 526222011500 Helix-turn-helix domains; Region: HTH; cl00088 526222011501 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 526222011502 active site clefts [active] 526222011503 zinc binding site [ion binding]; other site 526222011504 dimer interface [polypeptide binding]; other site 526222011505 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 526222011506 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 526222011507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011508 CoA-ligase; Region: Ligase_CoA; cl02894 526222011509 ATP-grasp domain; Region: ATP-grasp_4; cl03087 526222011510 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 526222011511 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 526222011512 acetyl-CoA synthetase; Provisional; Region: PRK00174 526222011513 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 526222011514 AMP-binding enzyme; Region: AMP-binding; cl15778 526222011515 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 526222011516 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 526222011517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 526222011518 Cache domain; Region: Cache_2; cl07034 526222011519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 526222011520 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 526222011521 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 526222011522 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 526222011523 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 526222011524 dimer interface [polypeptide binding]; other site 526222011525 phosphorylation site [posttranslational modification] 526222011526 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 526222011527 ATP binding site [chemical binding]; other site 526222011528 Mg2+ binding site [ion binding]; other site 526222011529 G-X-G motif; other site 526222011530 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 526222011531 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 526222011532 ATP binding site [chemical binding]; other site 526222011533 Mg2+ binding site [ion binding]; other site 526222011534 G-X-G motif; other site 526222011535 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 526222011536 Uncharacterized conserved protein [Function unknown]; Region: COG1912 526222011537 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 526222011538 Uncharacterized conserved protein [Function unknown]; Region: COG1284 526222011539 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 526222011540 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 526222011541 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 526222011542 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 526222011543 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 526222011544 active site 526222011545 HIGH motif; other site 526222011546 KMSK motif region; other site 526222011547 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 526222011548 tRNA binding surface [nucleotide binding]; other site 526222011549 anticodon binding site; other site 526222011550 Sporulation related domain; Region: SPOR; cl10051 526222011551 EamA-like transporter family; Region: EamA; cl01037 526222011552 EamA-like transporter family; Region: EamA; cl01037 526222011553 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 526222011554 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 526222011555 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 526222011556 putative active site [active] 526222011557 heme pocket [chemical binding]; other site 526222011558 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 526222011559 dimer interface [polypeptide binding]; other site 526222011560 phosphorylation site [posttranslational modification] 526222011561 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 526222011562 ATP binding site [chemical binding]; other site 526222011563 Mg2+ binding site [ion binding]; other site 526222011564 G-X-G motif; other site 526222011565 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 526222011566 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011567 active site 526222011568 phosphorylation site [posttranslational modification] 526222011569 intermolecular recognition site; other site 526222011570 dimerization interface [polypeptide binding]; other site 526222011571 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 526222011572 DNA binding site [nucleotide binding] 526222011573 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 526222011574 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222011575 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222011576 dimer interface [polypeptide binding]; other site 526222011577 putative CheW interface [polypeptide binding]; other site 526222011578 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011580 active site 526222011581 phosphorylation site [posttranslational modification] 526222011582 intermolecular recognition site; other site 526222011583 dimerization interface [polypeptide binding]; other site 526222011584 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 526222011585 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 526222011586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011587 active site 526222011588 phosphorylation site [posttranslational modification] 526222011589 intermolecular recognition site; other site 526222011590 dimerization interface [polypeptide binding]; other site 526222011591 CheB methylesterase; Region: CheB_methylest; pfam01339 526222011592 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 526222011593 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 526222011594 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 526222011595 putative binding surface; other site 526222011596 active site 526222011597 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 526222011598 ATP binding site [chemical binding]; other site 526222011599 Mg2+ binding site [ion binding]; other site 526222011600 G-X-G motif; other site 526222011601 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 526222011602 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011604 active site 526222011605 phosphorylation site [posttranslational modification] 526222011606 intermolecular recognition site; other site 526222011607 dimerization interface [polypeptide binding]; other site 526222011608 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 526222011609 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 526222011610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011611 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 526222011612 binding surface 526222011613 TPR motif; other site 526222011614 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 526222011615 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 526222011616 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 526222011617 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 526222011618 dimer interface [polypeptide binding]; other site 526222011619 putative CheW interface [polypeptide binding]; other site 526222011620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011621 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 526222011622 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 526222011623 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 526222011624 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 526222011625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 526222011626 metal binding site [ion binding]; metal-binding site 526222011627 active site 526222011628 I-site; other site 526222011629 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 526222011630 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 526222011631 putative glycosyl transferase; Provisional; Region: PRK10125 526222011632 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 526222011633 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011634 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011635 active site 526222011636 phosphorylation site [posttranslational modification] 526222011637 intermolecular recognition site; other site 526222011638 dimerization interface [polypeptide binding]; other site 526222011639 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 526222011640 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 526222011641 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 526222011642 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 526222011643 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 526222011644 active site 526222011645 metal binding site [ion binding]; metal-binding site 526222011646 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 526222011647 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 526222011648 alkyl hydroperoxide reductase, F subunit; Region: AhpF; TIGR03140 526222011649 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; cl15754 526222011650 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 526222011651 Major Facilitator Superfamily; Region: MFS_1; pfam07690 526222011652 putative substrate translocation pore; other site 526222011653 MFS_1 like family; Region: MFS_1_like; pfam12832 526222011654 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 526222011655 Helix-turn-helix domains; Region: HTH; cl00088 526222011656 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222011657 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011658 active site 526222011659 phosphorylation site [posttranslational modification] 526222011660 intermolecular recognition site; other site 526222011661 dimerization interface [polypeptide binding]; other site 526222011662 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 526222011663 Walker B motif; other site 526222011664 arginine finger; other site 526222011665 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 526222011666 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 526222011667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011668 ATP synthase subunit C; Region: ATP-synt_C; cl00466 526222011669 ATP synthase A chain; Region: ATP-synt_A; cl00413 526222011670 ATP synthase I chain; Region: ATP_synt_I; cl09170 526222011671 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 526222011672 AAA domain; Region: AAA_32; pfam13654 526222011673 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 526222011674 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 526222011675 Ion channel; Region: Ion_trans_2; cl11596 526222011676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011677 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 526222011678 ligand binding site [chemical binding]; other site 526222011679 flexible hinge region; other site 526222011680 TIGR04076 family protein; Region: TIGR04076 526222011681 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 526222011682 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 526222011683 ligand binding site [chemical binding]; other site 526222011684 flexible hinge region; other site 526222011685 Helix-turn-helix domains; Region: HTH; cl00088 526222011686 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 526222011687 Sporulation related domain; Region: SPOR; cl10051 526222011688 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 526222011689 IHF - DNA interface [nucleotide binding]; other site 526222011690 IHF dimer interface [polypeptide binding]; other site 526222011691 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 526222011692 HIT family signature motif; other site 526222011693 catalytic residue [active] 526222011694 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 526222011695 Radical SAM superfamily; Region: Radical_SAM; pfam04055 526222011696 FeS/SAM binding site; other site 526222011697 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 526222011698 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 526222011699 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 526222011700 catalytic residues [active] 526222011701 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 526222011702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011703 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 526222011704 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 526222011705 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 526222011706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011707 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 526222011708 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 526222011709 GAF domain; Region: GAF_2; pfam13185 526222011710 GAF domain; Region: GAF; cl15785 526222011711 4Fe-4S binding domain; Region: Fer4; cl02805 526222011712 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222011713 4Fe-4S binding domain; Region: Fer4; cl02805 526222011714 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 526222011715 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 526222011716 DNA-binding site [nucleotide binding]; DNA binding site 526222011717 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 526222011718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011719 homodimer interface [polypeptide binding]; other site 526222011720 catalytic residue [active] 526222011721 LysE type translocator; Region: LysE; cl00565 526222011722 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 526222011723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 526222011724 Fic/DOC family; Region: Fic; cl00960 526222011725 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 526222011726 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 526222011727 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 526222011728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 526222011729 Helix-turn-helix domains; Region: HTH; cl00088 526222011730 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 526222011731 dimerization interface [polypeptide binding]; other site 526222011732 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 526222011733 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 526222011734 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 526222011735 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 526222011736 4Fe-4S binding domain; Region: Fer4; cl02805 526222011737 Acyl transferase domain; Region: Acyl_transf_1; cl08282 526222011738 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 526222011739 FIST N domain; Region: FIST; cl10701 526222011740 FIST C domain; Region: FIST_C; pfam10442 526222011741 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 526222011742 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 526222011743 PAS domain; Region: PAS_9; pfam13426 526222011744 Response regulator receiver domain; Region: Response_reg; pfam00072 526222011745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011746 active site 526222011747 phosphorylation site [posttranslational modification] 526222011748 intermolecular recognition site; other site 526222011749 dimerization interface [polypeptide binding]; other site 526222011750 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 526222011751 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 526222011752 putative FMN binding site [chemical binding]; other site 526222011753 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 526222011754 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 526222011755 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 526222011756 Cation efflux family; Region: Cation_efflux; cl00316 526222011757 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 526222011758 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 526222011759 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 526222011760 ATP binding site [chemical binding]; other site 526222011761 putative Mg++ binding site [ion binding]; other site 526222011762 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 526222011763 nucleotide binding region [chemical binding]; other site 526222011764 ATP-binding site [chemical binding]; other site 526222011765 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 526222011766 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 526222011767 active site 526222011768 substrate binding site [chemical binding]; other site 526222011769 catalytic site [active] 526222011770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 526222011771 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 526222011772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011773 active site 526222011774 phosphorylation site [posttranslational modification] 526222011775 intermolecular recognition site; other site 526222011776 dimerization interface [polypeptide binding]; other site 526222011777 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 526222011778 Walker A motif; other site 526222011779 ATP binding site [chemical binding]; other site 526222011780 Walker B motif; other site 526222011781 arginine finger; other site 526222011782 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 526222011783 dimer interface [polypeptide binding]; other site 526222011784 phosphorylation site [posttranslational modification] 526222011785 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 526222011786 ATP binding site [chemical binding]; other site 526222011787 Mg2+ binding site [ion binding]; other site 526222011788 G-X-G motif; other site 526222011789 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 526222011790 dimer interface [polypeptide binding]; other site 526222011791 active site 526222011792 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 526222011793 dimer interface [polypeptide binding]; other site 526222011794 active site 526222011795 aspartate aminotransferase; Provisional; Region: PRK05764 526222011796 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 526222011797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 526222011798 homodimer interface [polypeptide binding]; other site 526222011799 catalytic residue [active] 526222011800 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 526222011801 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222011802 Walker A/P-loop; other site 526222011803 ATP binding site [chemical binding]; other site 526222011804 Q-loop/lid; other site 526222011805 ABC transporter signature motif; other site 526222011806 Walker B; other site 526222011807 D-loop; other site 526222011808 H-loop/switch region; other site 526222011809 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 526222011810 FtsX-like permease family; Region: FtsX; cl15850 526222011811 Dehydratase family; Region: ILVD_EDD; cl00340 526222011812 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222011813 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 526222011814 NAD binding site [chemical binding]; other site 526222011815 putative substrate binding site 2 [chemical binding]; other site 526222011816 putative substrate binding site 1 [chemical binding]; other site 526222011817 active site 526222011818 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 526222011819 Uncharacterized conserved protein [Function unknown]; Region: COG2006 526222011820 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222011821 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 526222011822 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 526222011823 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 526222011824 motif II; other site 526222011825 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 526222011826 EamA-like transporter family; Region: EamA; cl01037 526222011827 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 526222011828 EamA-like transporter family; Region: EamA; cl01037 526222011829 Domain of unknown function DUF39; Region: DUF39; cl14897 526222011830 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 526222011831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 526222011832 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 526222011833 DnaA box-binding interface [nucleotide binding]; other site 526222011834 DNA polymerase III subunit beta; Provisional; Region: PRK14947 526222011835 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 526222011836 putative DNA binding surface [nucleotide binding]; other site 526222011837 dimer interface [polypeptide binding]; other site 526222011838 beta-clamp/clamp loader binding surface; other site 526222011839 beta-clamp/translesion DNA polymerase binding surface; other site 526222011840 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 526222011841 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 526222011842 ATP binding site [chemical binding]; other site 526222011843 Mg2+ binding site [ion binding]; other site 526222011844 G-X-G motif; other site 526222011845 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 526222011846 anchoring element; other site 526222011847 dimer interface [polypeptide binding]; other site 526222011848 ATP binding site [chemical binding]; other site 526222011849 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 526222011850 active site 526222011851 putative metal-binding site [ion binding]; other site 526222011852 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 526222011853 DNA gyrase subunit A; Validated; Region: PRK05560 526222011854 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 in DNA...; Region: TOP4c; cd00187 526222011855 CAP-like domain; other site 526222011856 active site 526222011857 primary dimer interface [polypeptide binding]; other site 526222011858 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222011859 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222011860 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222011861 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222011862 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222011863 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 526222011864 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 526222011865 YfbU domain; Region: YfbU; cl01137 526222011866 Helix-turn-helix domains; Region: HTH; cl00088 526222011867 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 526222011868 dimerization interface [polypeptide binding]; other site 526222011869 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 526222011870 glutamine synthetase, type I; Region: GlnA; TIGR00653 526222011871 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 526222011872 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 526222011873 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 526222011874 ATP phosphoribosyltransferase; Region: HisG; cl15266 526222011875 HisG, C-terminal domain; Region: HisG_C; cl06867 526222011876 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 526222011877 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 526222011878 metal binding site 2 [ion binding]; metal-binding site 526222011879 putative DNA binding helix; other site 526222011880 metal binding site 1 [ion binding]; metal-binding site 526222011881 dimer interface [polypeptide binding]; other site 526222011882 structural Zn2+ binding site [ion binding]; other site 526222011883 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 526222011884 CHASE domain; Region: CHASE; cl01369 526222011885 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 526222011886 PAS fold; Region: PAS_3; pfam08447 526222011887 putative active site [active] 526222011888 heme pocket [chemical binding]; other site 526222011889 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 526222011890 PAS domain; Region: PAS_9; pfam13426 526222011891 putative active site [active] 526222011892 heme pocket [chemical binding]; other site 526222011893 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 526222011894 PAS domain; Region: PAS_9; pfam13426 526222011895 putative active site [active] 526222011896 heme pocket [chemical binding]; other site 526222011897 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 526222011898 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 526222011899 ATP binding site [chemical binding]; other site 526222011900 Mg2+ binding site [ion binding]; other site 526222011901 G-X-G motif; other site 526222011902 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 526222011903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 526222011904 active site 526222011905 phosphorylation site [posttranslational modification] 526222011906 intermolecular recognition site; other site 526222011907 dimerization interface [polypeptide binding]; other site 526222011908 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 526222011909 Zn2+ binding site [ion binding]; other site 526222011910 Mg2+ binding site [ion binding]; other site 526222011911 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 526222011912 Helix-turn-helix domains; Region: HTH; cl00088 526222011913 WHG domain; Region: WHG; pfam13305 526222011914 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 526222011915 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 526222011916 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 526222011917 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 526222011918 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 526222011919 Coenzyme A binding pocket [chemical binding]; other site 526222011920 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 526222011921 Spore germination protein; Region: Spore_permease; cl15802 526222011922 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 526222011923 DNA topoisomerase I; Validated; Region: PRK06599 526222011924 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 526222011925 active site 526222011926 interdomain interaction site; other site 526222011927 putative metal-binding site [ion binding]; other site 526222011928 nucleotide binding site [chemical binding]; other site 526222011929 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 526222011930 domain I; other site 526222011931 DNA binding groove [nucleotide binding] 526222011932 phosphate binding site [ion binding]; other site 526222011933 domain II; other site 526222011934 domain III; other site 526222011935 nucleotide binding site [chemical binding]; other site 526222011936 catalytic site [active] 526222011937 domain IV; other site 526222011938 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222011939 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222011940 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222011941 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 526222011942 GTPase Era; Reviewed; Region: era; PRK00089 526222011943 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 526222011944 G1 box; other site 526222011945 GTP/Mg2+ binding site [chemical binding]; other site 526222011946 Switch I region; other site 526222011947 G2 box; other site 526222011948 Switch II region; other site 526222011949 G3 box; other site 526222011950 G4 box; other site 526222011951 G5 box; other site 526222011952 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 526222011953 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 526222011954 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 526222011955 catalytic residue [active] 526222011956 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 526222011957 flagellar motor protein MotP; Reviewed; Region: PRK06926 526222011958 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 526222011959 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 526222011960 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222011961 ligand binding site [chemical binding]; other site 526222011962 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 526222011963 ligand binding site [chemical binding]; other site 526222011964 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 526222011965 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 526222011966 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 526222011967 FliP family; Region: FliP; cl00593 526222011968 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 526222011969 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 526222011970 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 526222011971 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 526222011972 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 catalyze...; Region: LT_GEWL; cd00254 526222011973 N-acetyl-D-glucosamine binding site [chemical binding]; other site 526222011974 catalytic residue [active] 526222011975 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 526222011976 putative peptidoglycan binding site; other site 526222011977 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 526222011978 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 526222011979 putative peptidoglycan binding site; other site 526222011980 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 526222011981 putative peptidoglycan binding site; other site 526222011982 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 526222011983 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 526222011984 NAD(P) binding site [chemical binding]; other site 526222011985 catalytic residues [active] 526222011986 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 526222011987 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 526222011988 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 526222011989 NAD(P) binding site [chemical binding]; other site 526222011990 shikimate binding site; other site 526222011991 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 526222011992 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 526222011993 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 526222011994 TPP-binding site [chemical binding]; other site 526222011995 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 526222011996 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 526222011997 dimer interface [polypeptide binding]; other site 526222011998 PYR/PP interface [polypeptide binding]; other site 526222011999 TPP binding site [chemical binding]; other site 526222012000 substrate binding site [chemical binding]; other site 526222012001 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 526222012002 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 526222012003 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 526222012004 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 526222012005 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 526222012006 Flavoprotein; Region: Flavoprotein; cl08021 526222012007 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 526222012008 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 526222012009 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 526222012010 dimer interface [polypeptide binding]; other site 526222012011 active site residues [active] 526222012012 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 526222012013 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 526222012014 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 526222012015 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 526222012016 putative NAD(P) binding site [chemical binding]; other site 526222012017 active site 526222012018 putative substrate binding site [chemical binding]; other site