-- dump date 20140620_025513 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1136179000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1136179000002 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 1136179000003 Walker A motif; other site 1136179000004 ATP binding site [chemical binding]; other site 1136179000005 Walker B motif; other site 1136179000006 arginine finger; other site 1136179000007 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 1136179000008 DnaA box-binding interface [nucleotide binding]; other site 1136179000009 hypothetical protein; Provisional; Region: PRK03195 1136179000010 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 1136179000011 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 1136179000012 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1136179000013 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179000014 ATP binding site [chemical binding]; other site 1136179000015 Mg2+ binding site [ion binding]; other site 1136179000016 G-X-G motif; other site 1136179000017 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 1136179000018 anchoring element; other site 1136179000019 dimer interface [polypeptide binding]; other site 1136179000020 ATP binding site [chemical binding]; other site 1136179000021 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 1136179000022 active site 1136179000023 putative metal-binding site [ion binding]; other site 1136179000024 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1136179000025 DNA gyrase subunit A; Validated; Region: PRK05560 1136179000026 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1136179000027 CAP-like domain; other site 1136179000028 active site 1136179000029 primary dimer interface [polypeptide binding]; other site 1136179000030 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1136179000031 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1136179000032 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1136179000033 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1136179000034 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1136179000035 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1136179000036 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1136179000037 active site 1136179000038 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1136179000039 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 1136179000040 putative substrate translocation pore; other site 1136179000041 putative septation inhibitor protein; Reviewed; Region: PRK00159 1136179000042 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1136179000043 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1136179000044 active site 1136179000045 ATP binding site [chemical binding]; other site 1136179000046 substrate binding site [chemical binding]; other site 1136179000047 activation loop (A-loop); other site 1136179000048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1136179000049 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1136179000050 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1136179000051 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1136179000052 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1136179000053 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1136179000054 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1136179000055 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1136179000056 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; cd00143 1136179000057 active site 1136179000058 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1136179000059 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1136179000060 phosphopeptide binding site; other site 1136179000061 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1136179000062 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1136179000063 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; pfam02148 1136179000064 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1136179000065 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1136179000066 Walker A/P-loop; other site 1136179000067 ATP binding site [chemical binding]; other site 1136179000068 Q-loop/lid; other site 1136179000069 ABC transporter signature motif; other site 1136179000070 Walker B; other site 1136179000071 D-loop; other site 1136179000072 H-loop/switch region; other site 1136179000073 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1136179000074 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1136179000075 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1136179000076 Walker A/P-loop; other site 1136179000077 ATP binding site [chemical binding]; other site 1136179000078 Q-loop/lid; other site 1136179000079 ABC transporter signature motif; other site 1136179000080 Walker B; other site 1136179000081 D-loop; other site 1136179000082 H-loop/switch region; other site 1136179000083 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1136179000084 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 1136179000085 RNA binding surface [nucleotide binding]; other site 1136179000086 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1136179000087 Putative cyclase; Region: Cyclase; pfam04199 1136179000088 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1136179000089 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 1136179000090 non-specific DNA binding site [nucleotide binding]; other site 1136179000091 salt bridge; other site 1136179000092 sequence-specific DNA binding site [nucleotide binding]; other site 1136179000093 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000094 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000095 succinic semialdehyde dehydrogenase; Reviewed; Region: gabD2; PRK09407 1136179000096 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 2-like; Region: ALDH_SSADH2_GabD2; cd07101 1136179000097 NAD(P) binding site [chemical binding]; other site 1136179000098 catalytic residues [active] 1136179000099 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1136179000100 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1136179000101 FAD binding pocket [chemical binding]; other site 1136179000102 FAD binding motif [chemical binding]; other site 1136179000103 phosphate binding motif [ion binding]; other site 1136179000104 NAD binding pocket [chemical binding]; other site 1136179000105 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179000106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179000107 active site 1136179000108 phosphorylation site [posttranslational modification] 1136179000109 intermolecular recognition site; other site 1136179000110 dimerization interface [polypeptide binding]; other site 1136179000111 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 1136179000112 DNA binding residues [nucleotide binding] 1136179000113 dimerization interface [polypeptide binding]; other site 1136179000114 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 1136179000115 PAS domain; Region: PAS_9; pfam13426 1136179000116 putative active site [active] 1136179000117 heme pocket [chemical binding]; other site 1136179000118 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000119 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000120 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1136179000121 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 1136179000122 ABC-ATPase subunit interface; other site 1136179000123 dimer interface [polypeptide binding]; other site 1136179000124 putative PBP binding regions; other site 1136179000125 Protein of unknown function (DUF664); Region: DUF664; pfam04978 1136179000126 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1136179000127 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1136179000128 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1136179000129 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1136179000130 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1136179000131 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 1136179000132 carboxyltransferase (CT) interaction site; other site 1136179000133 biotinylation site [posttranslational modification]; other site 1136179000134 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1136179000135 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1136179000136 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1136179000137 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 1136179000138 Active Sites [active] 1136179000139 Stf0 sulphotransferase; Region: Sulphotransf; pfam09037 1136179000140 Copper resistance protein D; Region: CopD; pfam05425 1136179000141 CopC domain; Region: CopC; pfam04234 1136179000142 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1136179000143 lipid-transfer protein; Provisional; Region: PRK08256 1136179000144 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1136179000145 active site 1136179000146 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1136179000147 hydrophobic ligand binding site; other site 1136179000148 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1136179000149 active site 1136179000150 catalytic site [active] 1136179000151 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 1136179000152 active site 2 [active] 1136179000153 active site 1 [active] 1136179000154 short chain dehydrogenase; Provisional; Region: PRK07791 1136179000155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179000156 NAD(P) binding site [chemical binding]; other site 1136179000157 active site 1136179000158 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1136179000159 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1136179000160 AsnC family; Region: AsnC_trans_reg; pfam01037 1136179000161 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1136179000162 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1136179000163 Predicted membrane protein [Function unknown]; Region: COG2119 1136179000164 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1136179000165 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1136179000166 Uncharacterized conserved protein [Function unknown]; Region: COG5361 1136179000167 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 1136179000168 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 1136179000169 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1136179000170 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1136179000171 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1136179000172 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1136179000173 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1136179000174 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1136179000175 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 1136179000176 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1136179000177 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1136179000178 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1136179000179 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1136179000180 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1136179000181 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1136179000182 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 1136179000183 catalytic core [active] 1136179000184 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1136179000185 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1136179000186 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 1136179000187 seryl-tRNA synthetase; Provisional; Region: PRK05431 1136179000188 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1136179000189 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1136179000190 dimer interface [polypeptide binding]; other site 1136179000191 active site 1136179000192 motif 1; other site 1136179000193 motif 2; other site 1136179000194 motif 3; other site 1136179000195 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1136179000196 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1136179000197 putative acyl-acceptor binding pocket; other site 1136179000198 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1136179000199 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1136179000200 putative acyl-acceptor binding pocket; other site 1136179000201 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 1136179000202 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1136179000203 active site 1136179000204 motif I; other site 1136179000205 motif II; other site 1136179000206 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1136179000207 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1136179000208 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1136179000209 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1136179000210 Spore germination protein; Region: Spore_permease; cl17796 1136179000211 putative acyltransferase; Provisional; Region: PRK05790 1136179000212 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1136179000213 dimer interface [polypeptide binding]; other site 1136179000214 active site 1136179000215 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179000216 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179000217 active site 1136179000218 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1136179000219 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1136179000220 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 1136179000221 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1136179000222 Putative esterase; Region: Esterase; pfam00756 1136179000223 S-formylglutathione hydrolase; Region: PLN02442 1136179000224 Putative esterase; Region: Esterase; pfam00756 1136179000225 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1136179000226 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1136179000227 LGFP repeat; Region: LGFP; pfam08310 1136179000228 LGFP repeat; Region: LGFP; pfam08310 1136179000229 LGFP repeat; Region: LGFP; pfam08310 1136179000230 Cutinase; Region: Cutinase; pfam01083 1136179000231 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 1136179000232 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1136179000233 acyl-activating enzyme (AAE) consensus motif; other site 1136179000234 active site 1136179000235 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1136179000236 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1136179000237 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1136179000238 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 1136179000239 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 1136179000240 sequence-specific DNA binding site [nucleotide binding]; other site 1136179000241 salt bridge; other site 1136179000242 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1136179000243 classical (c) SDRs; Region: SDR_c; cd05233 1136179000244 NAD(P) binding site [chemical binding]; other site 1136179000245 active site 1136179000246 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1136179000247 FAD binding domain; Region: FAD_binding_4; pfam01565 1136179000248 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1136179000249 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1136179000250 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1136179000251 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1136179000252 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1136179000253 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1136179000254 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 1136179000255 active site 1136179000256 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1136179000257 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 1136179000258 active site 1136179000259 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1136179000260 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1136179000261 Walker A/P-loop; other site 1136179000262 ATP binding site [chemical binding]; other site 1136179000263 Q-loop/lid; other site 1136179000264 ABC transporter signature motif; other site 1136179000265 Walker B; other site 1136179000266 D-loop; other site 1136179000267 H-loop/switch region; other site 1136179000268 Protein of unknown function (DUF2587); Region: DUF2587; pfam10759 1136179000269 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1136179000270 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1136179000271 NAD(P) binding site [chemical binding]; other site 1136179000272 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1136179000273 alpha-gamma subunit interface [polypeptide binding]; other site 1136179000274 beta-gamma subunit interface [polypeptide binding]; other site 1136179000275 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1136179000276 alpha-beta subunit interface [polypeptide binding]; other site 1136179000277 urease subunit alpha; Reviewed; Region: ureC; PRK13309 1136179000278 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1136179000279 subunit interactions [polypeptide binding]; other site 1136179000280 active site 1136179000281 flap region; other site 1136179000282 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1136179000283 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 1136179000284 dimer interface [polypeptide binding]; other site 1136179000285 catalytic residues [active] 1136179000286 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1136179000287 G1 box; other site 1136179000288 GTP/Mg2+ binding site [chemical binding]; other site 1136179000289 G2 box; other site 1136179000290 Switch I region; other site 1136179000291 Switch II region; other site 1136179000292 G4 box; other site 1136179000293 G5 box; other site 1136179000294 Urea transporter; Region: UT; cl01829 1136179000295 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1136179000296 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 1136179000297 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1136179000298 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1136179000299 Walker A/P-loop; other site 1136179000300 ATP binding site [chemical binding]; other site 1136179000301 Q-loop/lid; other site 1136179000302 ABC transporter signature motif; other site 1136179000303 Walker B; other site 1136179000304 D-loop; other site 1136179000305 H-loop/switch region; other site 1136179000306 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1136179000307 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1136179000308 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1136179000309 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1136179000310 additional DNA contacts [nucleotide binding]; other site 1136179000311 mismatch recognition site; other site 1136179000312 active site 1136179000313 zinc binding site [ion binding]; other site 1136179000314 DNA intercalation site [nucleotide binding]; other site 1136179000315 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 1136179000316 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 1136179000317 nucleoside/Zn binding site; other site 1136179000318 dimer interface [polypeptide binding]; other site 1136179000319 catalytic motif [active] 1136179000320 CsbD-like; Region: CsbD; pfam05532 1136179000321 Predicted transcriptional regulator [Transcription]; Region: COG1959 1136179000322 Transcriptional regulator; Region: Rrf2; pfam02082 1136179000323 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 1136179000324 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1136179000325 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 1136179000326 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1136179000327 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1136179000328 AsnC family; Region: AsnC_trans_reg; pfam01037 1136179000329 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1136179000330 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1136179000331 acetylornithine deacetylase; Provisional; Region: PRK07522 1136179000332 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1136179000333 metal binding site [ion binding]; metal-binding site 1136179000334 putative dimer interface [polypeptide binding]; other site 1136179000335 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 1136179000336 metabolite-proton symporter; Region: 2A0106; TIGR00883 1136179000337 putative substrate translocation pore; other site 1136179000338 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179000339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179000340 active site 1136179000341 phosphorylation site [posttranslational modification] 1136179000342 intermolecular recognition site; other site 1136179000343 dimerization interface [polypeptide binding]; other site 1136179000344 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 1136179000345 DNA binding site [nucleotide binding] 1136179000346 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 1136179000347 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 1136179000348 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1136179000349 catalytic residue [active] 1136179000350 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1136179000351 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1136179000352 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1136179000353 NADP binding site [chemical binding]; other site 1136179000354 dimer interface [polypeptide binding]; other site 1136179000355 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1136179000356 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1136179000357 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1136179000358 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1136179000359 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1136179000360 dimer interface [polypeptide binding]; other site 1136179000361 active site 1136179000362 FAD binding domain; Region: FAD_binding_4; pfam01565 1136179000363 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1136179000364 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 1136179000365 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1136179000366 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 1136179000367 active site 1136179000368 metal binding site [ion binding]; metal-binding site 1136179000369 hypothetical protein; Validated; Region: PRK00153 1136179000370 recombination protein RecR; Reviewed; Region: recR; PRK00076 1136179000371 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1136179000372 RecR protein; Region: RecR; pfam02132 1136179000373 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1136179000374 putative active site [active] 1136179000375 putative metal-binding site [ion binding]; other site 1136179000376 tetramer interface [polypeptide binding]; other site 1136179000377 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000378 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000379 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1136179000380 DUF35 OB-fold domain; Region: DUF35; pfam01796 1136179000381 lipid-transfer protein; Provisional; Region: PRK07855 1136179000382 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1136179000383 active site 1136179000384 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179000385 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179000386 active site 1136179000387 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1136179000388 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1136179000389 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1136179000390 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1136179000391 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 1136179000392 putative DNA binding site [nucleotide binding]; other site 1136179000393 putative Zn2+ binding site [ion binding]; other site 1136179000394 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 1136179000395 putative dimerization interface [polypeptide binding]; other site 1136179000396 2-isopropylmalate synthase; Validated; Region: PRK03739 1136179000397 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1136179000398 active site 1136179000399 catalytic residues [active] 1136179000400 metal binding site [ion binding]; metal-binding site 1136179000401 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1136179000402 aspartate kinase; Reviewed; Region: PRK06635 1136179000403 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 1136179000404 putative nucleotide binding site [chemical binding]; other site 1136179000405 putative catalytic residues [active] 1136179000406 putative Mg ion binding site [ion binding]; other site 1136179000407 putative aspartate binding site [chemical binding]; other site 1136179000408 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 1136179000409 putative allosteric regulatory site; other site 1136179000410 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 1136179000411 putative allosteric regulatory residue; other site 1136179000412 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1136179000413 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1136179000414 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1136179000415 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1136179000416 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 1136179000417 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179000418 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 1136179000419 DNA binding residues [nucleotide binding] 1136179000420 dimerization interface [polypeptide binding]; other site 1136179000421 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1136179000422 metal binding site 2 [ion binding]; metal-binding site 1136179000423 putative DNA binding helix; other site 1136179000424 metal binding site 1 [ion binding]; metal-binding site 1136179000425 dimer interface [polypeptide binding]; other site 1136179000426 structural Zn2+ binding site [ion binding]; other site 1136179000427 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1136179000428 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1136179000429 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 1136179000430 motif II; other site 1136179000431 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1136179000432 F420-dependent oxidoreductase, G6PDH family; Region: F420_G6P_family; TIGR03557 1136179000433 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179000434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179000435 active site 1136179000436 phosphorylation site [posttranslational modification] 1136179000437 intermolecular recognition site; other site 1136179000438 dimerization interface [polypeptide binding]; other site 1136179000439 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 1136179000440 DNA binding site [nucleotide binding] 1136179000441 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1136179000442 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1136179000443 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1136179000444 putative active site [active] 1136179000445 putative metal binding site [ion binding]; other site 1136179000446 Yqey-like protein; Region: YqeY; pfam09424 1136179000447 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1136179000448 Transglycosylase; Region: Transgly; pfam00912 1136179000449 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1136179000450 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1136179000451 Transcription factor WhiB; Region: Whib; pfam02467 1136179000452 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 1136179000453 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1136179000454 P loop; other site 1136179000455 Nucleotide binding site [chemical binding]; other site 1136179000456 DTAP/Switch II; other site 1136179000457 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1136179000458 homotrimer interaction site [polypeptide binding]; other site 1136179000459 putative active site [active] 1136179000460 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1136179000461 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 1136179000462 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1136179000463 NAD binding site [chemical binding]; other site 1136179000464 catalytic residues [active] 1136179000465 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1136179000466 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 1136179000467 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 1136179000468 metabolite-proton symporter; Region: 2A0106; TIGR00883 1136179000469 putative substrate translocation pore; other site 1136179000470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1136179000471 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 1136179000472 dimerization interface [polypeptide binding]; other site 1136179000473 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1136179000474 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 1136179000475 ligand binding site [chemical binding]; other site 1136179000476 flexible hinge region; other site 1136179000477 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1136179000478 putative switch regulator; other site 1136179000479 non-specific DNA interactions [nucleotide binding]; other site 1136179000480 DNA binding site [nucleotide binding] 1136179000481 sequence specific DNA binding site [nucleotide binding]; other site 1136179000482 putative cAMP binding site [chemical binding]; other site 1136179000483 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1136179000484 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1136179000485 minor groove reading motif; other site 1136179000486 helix-hairpin-helix signature motif; other site 1136179000487 substrate binding pocket [chemical binding]; other site 1136179000488 active site 1136179000489 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1136179000490 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1136179000491 putative active site [active] 1136179000492 putative CoA binding site [chemical binding]; other site 1136179000493 nudix motif; other site 1136179000494 metal binding site [ion binding]; metal-binding site 1136179000495 Colicin V production protein; Region: Colicin_V; pfam02674 1136179000496 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1136179000497 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1136179000498 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1136179000499 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1136179000500 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 1136179000501 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 1136179000502 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1136179000503 multimer interface [polypeptide binding]; other site 1136179000504 active site 1136179000505 catalytic triad [active] 1136179000506 dimer interface [polypeptide binding]; other site 1136179000507 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1136179000508 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1136179000509 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179000510 dimer interface [polypeptide binding]; other site 1136179000511 conserved gate region; other site 1136179000512 putative PBP binding loops; other site 1136179000513 ABC-ATPase subunit interface; other site 1136179000514 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1136179000515 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179000516 dimer interface [polypeptide binding]; other site 1136179000517 conserved gate region; other site 1136179000518 putative PBP binding loops; other site 1136179000519 ABC-ATPase subunit interface; other site 1136179000520 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1136179000521 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 1136179000522 motif II; other site 1136179000523 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1136179000524 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 1136179000525 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1136179000526 DNA-binding site [nucleotide binding]; DNA binding site 1136179000527 RNA-binding motif; other site 1136179000528 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1136179000529 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 1136179000530 active site 1136179000531 interdomain interaction site; other site 1136179000532 putative metal-binding site [ion binding]; other site 1136179000533 nucleotide binding site [chemical binding]; other site 1136179000534 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 1136179000535 domain I; other site 1136179000536 phosphate binding site [ion binding]; other site 1136179000537 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 1136179000538 domain II; other site 1136179000539 domain III; other site 1136179000540 nucleotide binding site [chemical binding]; other site 1136179000541 DNA binding groove [nucleotide binding] 1136179000542 catalytic site [active] 1136179000543 domain IV; other site 1136179000544 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1136179000545 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1136179000546 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1136179000547 DNA polymerase III subunit delta'; Validated; Region: PRK07940 1136179000548 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1136179000549 Walker A motif; other site 1136179000550 ATP binding site [chemical binding]; other site 1136179000551 Walker B motif; other site 1136179000552 arginine finger; other site 1136179000553 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1136179000554 RDD family; Region: RDD; pfam06271 1136179000555 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 1136179000556 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1136179000557 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1136179000558 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1136179000559 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1136179000560 metal binding site [ion binding]; metal-binding site 1136179000561 active site 1136179000562 I-site; other site 1136179000563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1136179000564 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1136179000565 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179000566 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1136179000567 acyl-activating enzyme (AAE) consensus motif; other site 1136179000568 AMP binding site [chemical binding]; other site 1136179000569 active site 1136179000570 CoA binding site [chemical binding]; other site 1136179000571 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1136179000572 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 1136179000573 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 1136179000574 putative trimer interface [polypeptide binding]; other site 1136179000575 putative CoA binding site [chemical binding]; other site 1136179000576 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 1136179000577 putative trimer interface [polypeptide binding]; other site 1136179000578 putative CoA binding site [chemical binding]; other site 1136179000579 BCCT family transporter; Region: BCCT; pfam02028 1136179000580 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1136179000581 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1136179000582 Na binding site [ion binding]; other site 1136179000583 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1136179000584 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 1136179000585 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1136179000586 catalytic residue [active] 1136179000587 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1136179000588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000590 RNase domain (also known as the kinase extension nuclease domain) of Ire1 and RNase L; Region: RNase_Ire1_like; cl15368 1136179000591 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1136179000592 agmatinase; Region: agmatinase; TIGR01230 1136179000593 oligomer interface [polypeptide binding]; other site 1136179000594 putative active site [active] 1136179000595 Mn binding site [ion binding]; other site 1136179000596 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 1136179000597 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 1136179000598 inhibitor-cofactor binding pocket; inhibition site 1136179000599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179000600 catalytic residue [active] 1136179000601 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1136179000602 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 1136179000603 putative deacylase active site [active] 1136179000604 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1136179000605 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1136179000606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000608 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1136179000609 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1136179000610 MgtC family; Region: MgtC; pfam02308 1136179000611 hypothetical protein; Provisional; Region: PRK14013 1136179000612 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1136179000613 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1136179000614 putative metal binding site [ion binding]; other site 1136179000615 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1136179000616 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 1136179000617 active site 1136179000618 catalytic triad [active] 1136179000619 oxyanion hole [active] 1136179000620 tellurite resistance protein terB; Region: terB; cd07176 1136179000621 putative metal binding site [ion binding]; other site 1136179000622 putative OHCU decarboxylase; Provisional; Region: PRK13798 1136179000623 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 1136179000624 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1136179000625 active site 1136179000626 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1136179000627 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179000628 DNA-binding site [nucleotide binding]; DNA binding site 1136179000629 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1136179000630 homodecamer interface [polypeptide binding]; other site 1136179000631 GTP cyclohydrolase I; Provisional; Region: PLN03044 1136179000632 active site 1136179000633 putative catalytic site residues [active] 1136179000634 zinc binding site [ion binding]; other site 1136179000635 GTP-CH-I/GFRP interaction surface; other site 1136179000636 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1136179000637 homooctamer interface [polypeptide binding]; other site 1136179000638 active site 1136179000639 Uncharacterized conserved protein [Function unknown]; Region: COG5495 1136179000640 Rossmann-like domain; Region: Rossmann-like; pfam10727 1136179000641 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1136179000642 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1136179000643 tetramerization interface [polypeptide binding]; other site 1136179000644 active site 1136179000645 Rhodanese Homology Domain; Region: RHOD; smart00450 1136179000646 active site residue [active] 1136179000647 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1136179000648 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 1136179000649 dimer interface [polypeptide binding]; other site 1136179000650 putative anticodon binding site; other site 1136179000651 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1136179000652 motif 1; other site 1136179000653 dimer interface [polypeptide binding]; other site 1136179000654 active site 1136179000655 motif 2; other site 1136179000656 motif 3; other site 1136179000657 Lsr2; Region: Lsr2; pfam11774 1136179000658 Lipase (class 2); Region: Lipase_2; pfam01674 1136179000659 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1136179000660 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1136179000661 Clp amino terminal domain; Region: Clp_N; pfam02861 1136179000662 Clp amino terminal domain; Region: Clp_N; pfam02861 1136179000663 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 1136179000664 Walker A motif; other site 1136179000665 ATP binding site [chemical binding]; other site 1136179000666 Walker B motif; other site 1136179000667 arginine finger; other site 1136179000668 UvrB/uvrC motif; Region: UVR; pfam02151 1136179000669 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 1136179000670 Walker A motif; other site 1136179000671 ATP binding site [chemical binding]; other site 1136179000672 Walker B motif; other site 1136179000673 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1136179000674 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 1136179000675 nucleoside/Zn binding site; other site 1136179000676 dimer interface [polypeptide binding]; other site 1136179000677 catalytic motif [active] 1136179000678 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1136179000679 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1136179000680 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179000681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179000682 active site 1136179000683 phosphorylation site [posttranslational modification] 1136179000684 intermolecular recognition site; other site 1136179000685 dimerization interface [polypeptide binding]; other site 1136179000686 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 1136179000687 DNA binding residues [nucleotide binding] 1136179000688 dimerization interface [polypeptide binding]; other site 1136179000689 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 1136179000690 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1136179000691 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1136179000692 Permease; Region: Permease; pfam02405 1136179000693 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_cladeC; cd03378 1136179000694 active site clefts [active] 1136179000695 zinc binding site [ion binding]; other site 1136179000696 dimer interface [polypeptide binding]; other site 1136179000697 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 1136179000698 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1136179000699 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 1136179000700 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 1136179000701 CoenzymeA binding site [chemical binding]; other site 1136179000702 subunit interaction site [polypeptide binding]; other site 1136179000703 PHB binding site; other site 1136179000704 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1136179000705 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1136179000706 substrate binding site; other site 1136179000707 dimer interface; other site 1136179000708 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1136179000709 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1136179000710 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1136179000711 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1136179000712 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1136179000713 siderophore binding site; other site 1136179000714 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1136179000715 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 1136179000716 dimer interface [polypeptide binding]; other site 1136179000717 putative PBP binding regions; other site 1136179000718 ABC-ATPase subunit interface; other site 1136179000719 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1136179000720 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1136179000721 DNA binding site [nucleotide binding] 1136179000722 domain linker motif; other site 1136179000723 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 1136179000724 putative dimerization interface [polypeptide binding]; other site 1136179000725 putative ligand binding site [chemical binding]; other site 1136179000726 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1136179000727 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 1136179000728 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1136179000729 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1136179000730 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000731 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000732 lipid-transfer protein; Provisional; Region: PRK07855 1136179000733 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1136179000734 active site 1136179000735 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 1136179000736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179000737 NAD(P) binding site [chemical binding]; other site 1136179000738 active site 1136179000739 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179000740 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1136179000741 Walker A/P-loop; other site 1136179000742 ATP binding site [chemical binding]; other site 1136179000743 Q-loop/lid; other site 1136179000744 ABC transporter signature motif; other site 1136179000745 Walker B; other site 1136179000746 D-loop; other site 1136179000747 H-loop/switch region; other site 1136179000748 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1136179000749 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1136179000750 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000751 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000752 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1136179000753 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1136179000754 DNA binding residues [nucleotide binding] 1136179000755 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1136179000756 FAD binding domain; Region: FAD_binding_4; pfam01565 1136179000757 Cholesterol oxidase, substrate-binding; Region: Chol_subst-bind; pfam09129 1136179000758 enoyl-CoA hydratase; Region: PLN02864 1136179000759 Metal-binding domain of MaoC dehydratase; Region: zf-MaoC; pfam13452 1136179000760 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1136179000761 dimer interaction site [polypeptide binding]; other site 1136179000762 substrate-binding tunnel; other site 1136179000763 active site 1136179000764 catalytic site [active] 1136179000765 substrate binding site [chemical binding]; other site 1136179000766 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1136179000767 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1136179000768 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1136179000769 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1136179000770 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1136179000771 active site 1136179000772 catalytic residues [active] 1136179000773 metal binding site [ion binding]; metal-binding site 1136179000774 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1136179000775 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 1136179000776 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1136179000777 Di-iron ligands [ion binding]; other site 1136179000778 Rubredoxin; Region: Rubredoxin; pfam00301 1136179000779 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 1136179000780 iron binding site [ion binding]; other site 1136179000781 Rubredoxin [Energy production and conversion]; Region: COG1773 1136179000782 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 1136179000783 iron binding site [ion binding]; other site 1136179000784 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000785 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000786 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1136179000787 The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH). The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway; Region: Rieske_RO_Alpha_KSH; cd03531 1136179000788 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1136179000789 hydrophobic ligand binding site; other site 1136179000790 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 1136179000791 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 1136179000792 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1136179000793 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 1136179000794 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 1136179000795 active site 1136179000796 Fe binding site [ion binding]; other site 1136179000797 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1136179000798 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 1136179000799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1136179000800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 1136179000801 MarR family; Region: MarR_2; cl17246 1136179000802 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1136179000803 Cupin domain; Region: Cupin_2; cl17218 1136179000804 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 1136179000805 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1136179000806 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 1136179000807 CoenzymeA binding site [chemical binding]; other site 1136179000808 subunit interaction site [polypeptide binding]; other site 1136179000809 PHB binding site; other site 1136179000810 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 1136179000811 putative hydrophobic ligand binding site [chemical binding]; other site 1136179000812 protein interface [polypeptide binding]; other site 1136179000813 gate; other site 1136179000814 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 1136179000815 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1136179000816 active site 1136179000817 catalytic tetrad [active] 1136179000818 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1136179000819 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1136179000820 AsnC family; Region: AsnC_trans_reg; pfam01037 1136179000821 Pirin-related protein [General function prediction only]; Region: COG1741 1136179000822 Pirin; Region: Pirin; pfam02678 1136179000823 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1136179000824 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179000825 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179000826 active site 1136179000827 enoyl-CoA hydratase; Provisional; Region: PRK08290 1136179000828 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179000829 substrate binding site [chemical binding]; other site 1136179000830 oxyanion hole (OAH) forming residues; other site 1136179000831 trimer interface [polypeptide binding]; other site 1136179000832 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 1136179000833 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179000834 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1136179000835 acyl-activating enzyme (AAE) consensus motif; other site 1136179000836 putative AMP binding site [chemical binding]; other site 1136179000837 putative active site [active] 1136179000838 putative CoA binding site [chemical binding]; other site 1136179000839 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 1136179000840 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1136179000841 dimer interface [polypeptide binding]; other site 1136179000842 active site 1136179000843 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 1136179000844 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000845 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000846 Uncharacterized conserved protein (DUF2277); Region: DUF2277; pfam10041 1136179000847 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1136179000848 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1136179000849 Permease; Region: Permease; pfam02405 1136179000850 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1136179000851 Permease; Region: Permease; pfam02405 1136179000852 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1136179000853 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1136179000854 Nitronate monooxygenase; Region: NMO; pfam03060 1136179000855 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 1136179000856 FMN binding site [chemical binding]; other site 1136179000857 substrate binding site [chemical binding]; other site 1136179000858 putative catalytic residue [active] 1136179000859 Coenzyme A transferase; Region: CoA_trans; cl17247 1136179000860 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1136179000861 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179000862 substrate binding site [chemical binding]; other site 1136179000863 oxyanion hole (OAH) forming residues; other site 1136179000864 trimer interface [polypeptide binding]; other site 1136179000865 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 1136179000866 primary dimer interface [polypeptide binding]; other site 1136179000867 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1136179000868 acetyl-CoA acetyltransferase; Provisional; Region: PRK07850 1136179000869 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1136179000870 dimer interface [polypeptide binding]; other site 1136179000871 active site 1136179000872 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1136179000873 Cytochrome P450; Region: p450; cl12078 1136179000874 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 1136179000875 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1136179000876 metal binding site [ion binding]; metal-binding site 1136179000877 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 1136179000878 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1136179000879 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1136179000880 acetyl-CoA acetyltransferase; Provisional; Region: PRK08313 1136179000881 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1136179000882 active site 1136179000883 lipid-transfer protein; Provisional; Region: PRK07937 1136179000884 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1136179000885 active site 1136179000886 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1136179000887 DUF35 OB-fold domain; Region: DUF35; pfam01796 1136179000888 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 1136179000889 DUF35 OB-fold domain; Region: DUF35; pfam01796 1136179000890 enoyl-CoA hydratase; Provisional; Region: PRK07799 1136179000891 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179000892 substrate binding site [chemical binding]; other site 1136179000893 oxyanion hole (OAH) forming residues; other site 1136179000894 trimer interface [polypeptide binding]; other site 1136179000895 acyl-CoA synthetase; Validated; Region: PRK07798 1136179000896 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179000897 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 1136179000898 acyl-activating enzyme (AAE) consensus motif; other site 1136179000899 acyl-activating enzyme (AAE) consensus motif; other site 1136179000900 putative AMP binding site [chemical binding]; other site 1136179000901 putative active site [active] 1136179000902 putative CoA binding site [chemical binding]; other site 1136179000903 Nitronate monooxygenase; Region: NMO; pfam03060 1136179000904 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 1136179000905 FMN binding site [chemical binding]; other site 1136179000906 substrate binding site [chemical binding]; other site 1136179000907 putative catalytic residue [active] 1136179000908 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1136179000909 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179000910 DNA-binding site [nucleotide binding]; DNA binding site 1136179000911 FCD domain; Region: FCD; pfam07729 1136179000912 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1136179000913 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1136179000914 Walker A/P-loop; other site 1136179000915 ATP binding site [chemical binding]; other site 1136179000916 Q-loop/lid; other site 1136179000917 ABC transporter signature motif; other site 1136179000918 Walker B; other site 1136179000919 D-loop; other site 1136179000920 H-loop/switch region; other site 1136179000921 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1136179000922 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1136179000923 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179000924 dimer interface [polypeptide binding]; other site 1136179000925 conserved gate region; other site 1136179000926 ABC-ATPase subunit interface; other site 1136179000927 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1136179000928 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1136179000929 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1136179000930 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1136179000931 inhibitor site; inhibition site 1136179000932 active site 1136179000933 dimer interface [polypeptide binding]; other site 1136179000934 catalytic residue [active] 1136179000935 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179000936 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1136179000937 FAD binding site [chemical binding]; other site 1136179000938 substrate binding site [chemical binding]; other site 1136179000939 catalytic base [active] 1136179000940 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1136179000941 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 1136179000942 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1136179000943 Permease; Region: Permease; pfam02405 1136179000944 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1136179000945 Permease; Region: Permease; pfam02405 1136179000946 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1136179000947 mce related protein; Region: MCE; pfam02470 1136179000948 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 1136179000949 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1136179000950 mce related protein; Region: MCE; pfam02470 1136179000951 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1136179000952 mce related protein; Region: MCE; pfam02470 1136179000953 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 1136179000954 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 1136179000955 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1136179000956 active site 1136179000957 homotetramer interface [polypeptide binding]; other site 1136179000958 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 1136179000959 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 1136179000960 active site 1136179000961 substrate binding site [chemical binding]; other site 1136179000962 cosubstrate binding site; other site 1136179000963 catalytic site [active] 1136179000964 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 1136179000965 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1136179000966 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1136179000967 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1136179000968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1136179000969 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 1136179000970 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1136179000971 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1136179000972 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1136179000973 D-glutamate deacylase; Validated; Region: PRK09061 1136179000974 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 1136179000975 active site 1136179000976 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 1136179000977 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1136179000978 SxDxEG motif; other site 1136179000979 active site 1136179000980 metal binding site [ion binding]; metal-binding site 1136179000981 homopentamer interface [polypeptide binding]; other site 1136179000982 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 1136179000983 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1136179000984 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179000985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179000986 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1136179000987 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179000988 dimer interface [polypeptide binding]; other site 1136179000989 conserved gate region; other site 1136179000990 putative PBP binding loops; other site 1136179000991 ABC-ATPase subunit interface; other site 1136179000992 aspartate aminotransferase; Provisional; Region: PRK05764 1136179000993 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 1136179000994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179000995 homodimer interface [polypeptide binding]; other site 1136179000996 catalytic residue [active] 1136179000997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1136179000998 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 1136179000999 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1136179001000 tetramer interface [polypeptide binding]; other site 1136179001001 Histidine kinase; Region: HisKA_3; pfam07730 1136179001002 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1136179001003 ATP binding site [chemical binding]; other site 1136179001004 Mg2+ binding site [ion binding]; other site 1136179001005 G-X-G motif; other site 1136179001006 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179001007 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179001008 active site 1136179001009 phosphorylation site [posttranslational modification] 1136179001010 intermolecular recognition site; other site 1136179001011 dimerization interface [polypeptide binding]; other site 1136179001012 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 1136179001013 DNA binding residues [nucleotide binding] 1136179001014 dimerization interface [polypeptide binding]; other site 1136179001015 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1136179001016 ATP binding site [chemical binding]; other site 1136179001017 active site 1136179001018 substrate binding site [chemical binding]; other site 1136179001019 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1136179001020 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1136179001021 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1136179001022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179001023 active site 1136179001024 phosphorylation site [posttranslational modification] 1136179001025 intermolecular recognition site; other site 1136179001026 dimerization interface [polypeptide binding]; other site 1136179001027 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1136179001028 putative DNA binding site [nucleotide binding]; other site 1136179001029 putative Zn2+ binding site [ion binding]; other site 1136179001030 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1136179001031 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179001032 ATP binding site [chemical binding]; other site 1136179001033 Mg2+ binding site [ion binding]; other site 1136179001034 G-X-G motif; other site 1136179001035 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1136179001036 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1136179001037 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1136179001038 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1136179001039 siderophore binding site; other site 1136179001040 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1136179001041 catalytic residues [active] 1136179001042 dimer interface [polypeptide binding]; other site 1136179001043 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1136179001044 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1136179001045 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1136179001046 putative active site [active] 1136179001047 catalytic triad [active] 1136179001048 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 1136179001049 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179001050 DNA-binding site [nucleotide binding]; DNA binding site 1136179001051 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 1136179001052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179001053 homodimer interface [polypeptide binding]; other site 1136179001054 catalytic residue [active] 1136179001055 yiaA/B two helix domain; Region: YiaAB; cl01759 1136179001056 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1136179001057 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1136179001058 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 1136179001059 putative substrate translocation pore; other site 1136179001060 POT family; Region: PTR2; cl17359 1136179001061 YceI-like domain; Region: YceI; smart00867 1136179001062 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1136179001063 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179001064 DNA-binding site [nucleotide binding]; DNA binding site 1136179001065 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1136179001066 Predicted integral membrane protein [Function unknown]; Region: COG0392 1136179001067 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 1136179001068 dimerization interface [polypeptide binding]; other site 1136179001069 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 1136179001070 cyclase homology domain; Region: CHD; cd07302 1136179001071 nucleotidyl binding site; other site 1136179001072 metal binding site [ion binding]; metal-binding site 1136179001073 dimer interface [polypeptide binding]; other site 1136179001074 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1136179001075 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1136179001076 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179001077 ATP binding site [chemical binding]; other site 1136179001078 Mg2+ binding site [ion binding]; other site 1136179001079 G-X-G motif; other site 1136179001080 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179001081 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179001082 active site 1136179001083 phosphorylation site [posttranslational modification] 1136179001084 intermolecular recognition site; other site 1136179001085 dimerization interface [polypeptide binding]; other site 1136179001086 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 1136179001087 DNA binding residues [nucleotide binding] 1136179001088 dimerization interface [polypeptide binding]; other site 1136179001089 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1136179001090 putative active site [active] 1136179001091 putative catalytic site [active] 1136179001092 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179001093 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179001094 LabA_like proteins; Region: LabA_like; cd06167 1136179001095 putative metal binding site [ion binding]; other site 1136179001096 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 1136179001097 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 1136179001098 active site 1136179001099 substrate-binding site [chemical binding]; other site 1136179001100 metal-binding site [ion binding] 1136179001101 GTP binding site [chemical binding]; other site 1136179001102 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1136179001103 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 1136179001104 dimer interface [polypeptide binding]; other site 1136179001105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179001106 catalytic residue [active] 1136179001107 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1136179001108 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 1136179001109 trimer interface [polypeptide binding]; other site 1136179001110 active site 1136179001111 substrate binding site [chemical binding]; other site 1136179001112 CoA binding site [chemical binding]; other site 1136179001113 Cation efflux family; Region: Cation_efflux; pfam01545 1136179001114 proposed F420-0 ABC transporter, ATP-binding protein; Region: F420-0_ABC_ATP; TIGR03873 1136179001115 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1136179001116 Walker A/P-loop; other site 1136179001117 ATP binding site [chemical binding]; other site 1136179001118 Q-loop/lid; other site 1136179001119 ABC transporter signature motif; other site 1136179001120 Walker B; other site 1136179001121 D-loop; other site 1136179001122 H-loop/switch region; other site 1136179001123 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 1136179001124 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1136179001125 intersubunit interface [polypeptide binding]; other site 1136179001126 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 1136179001127 Protein of unknown function (DUF2613); Region: DUF2613; pfam11021 1136179001128 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 1136179001129 Ligand Binding Site [chemical binding]; other site 1136179001130 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1136179001131 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1136179001132 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179001133 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179001134 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 1136179001135 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 1136179001136 active site 2 [active] 1136179001137 active site 1 [active] 1136179001138 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1136179001139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179001140 NAD(P) binding site [chemical binding]; other site 1136179001141 active site 1136179001142 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1136179001143 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1136179001144 dimer interface [polypeptide binding]; other site 1136179001145 active site 1136179001146 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1136179001147 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1136179001148 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1136179001149 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1136179001150 FAD binding site [chemical binding]; other site 1136179001151 substrate binding site [chemical binding]; other site 1136179001152 catalytic residues [active] 1136179001153 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1136179001154 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179001155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179001156 phosphorylation site [posttranslational modification] 1136179001157 intermolecular recognition site; other site 1136179001158 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 1136179001159 DNA binding residues [nucleotide binding] 1136179001160 dimerization interface [polypeptide binding]; other site 1136179001161 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1136179001162 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 1136179001163 dimer interface [polypeptide binding]; other site 1136179001164 active site 1136179001165 CoA binding pocket [chemical binding]; other site 1136179001166 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1136179001167 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1136179001168 helix_turn_helix, mercury resistance; Region: HTH_MERR; smart00422 1136179001169 DNA binding residues [nucleotide binding] 1136179001170 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1136179001171 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1136179001172 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1136179001173 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1136179001174 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 1136179001175 P-loop; other site 1136179001176 Magnesium ion binding site [ion binding]; other site 1136179001177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179001178 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1136179001179 NAD(P) binding site [chemical binding]; other site 1136179001180 active site 1136179001181 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1136179001182 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179001183 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1136179001184 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1136179001185 NAD binding site [chemical binding]; other site 1136179001186 catalytic Zn binding site [ion binding]; other site 1136179001187 structural Zn binding site [ion binding]; other site 1136179001188 PAS fold; Region: PAS_3; pfam08447 1136179001189 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 1136179001190 PPOX class probable F420-dependent enzyme, MSMEG_5819 family; Region: PPOX_MSMEG_5819; TIGR04023 1136179001191 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1136179001192 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 1136179001193 ABC-ATPase subunit interface; other site 1136179001194 dimer interface [polypeptide binding]; other site 1136179001195 putative PBP binding regions; other site 1136179001196 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1136179001197 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 1136179001198 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 1136179001199 homotrimer interaction site [polypeptide binding]; other site 1136179001200 putative active site [active] 1136179001201 putative acyltransferase; Provisional; Region: PRK05790 1136179001202 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1136179001203 dimer interface [polypeptide binding]; other site 1136179001204 active site 1136179001205 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1136179001206 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1136179001207 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1136179001208 Bacterial transcriptional regulator; Region: IclR; pfam01614 1136179001209 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 1136179001210 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1136179001211 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 1136179001212 metabolite-proton symporter; Region: 2A0106; TIGR00883 1136179001213 putative substrate translocation pore; other site 1136179001214 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1136179001215 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1136179001216 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1136179001217 D-pathway; other site 1136179001218 Putative ubiquinol binding site [chemical binding]; other site 1136179001219 Low-spin heme (heme b) binding site [chemical binding]; other site 1136179001220 Putative water exit pathway; other site 1136179001221 Binuclear center (heme o3/CuB) [ion binding]; other site 1136179001222 K-pathway; other site 1136179001223 Putative proton exit pathway; other site 1136179001224 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179001225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179001226 active site 1136179001227 phosphorylation site [posttranslational modification] 1136179001228 intermolecular recognition site; other site 1136179001229 dimerization interface [polypeptide binding]; other site 1136179001230 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 1136179001231 DNA binding residues [nucleotide binding] 1136179001232 dimerization interface [polypeptide binding]; other site 1136179001233 Domain of unknown function (DUF385); Region: DUF385; cl04387 1136179001234 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1136179001235 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 1136179001236 metal binding site [ion binding]; metal-binding site 1136179001237 putative dimer interface [polypeptide binding]; other site 1136179001238 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12845 1136179001239 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1136179001240 Predicted transcriptional regulators [Transcription]; Region: COG1725 1136179001241 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179001242 DNA-binding site [nucleotide binding]; DNA binding site 1136179001243 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1136179001244 trimer interface [polypeptide binding]; other site 1136179001245 active site 1136179001246 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1136179001247 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1136179001248 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1136179001249 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 1136179001250 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1136179001251 GAF domain; Region: GAF; pfam01590 1136179001252 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 1136179001253 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 1136179001254 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1136179001255 DNA-binding site [nucleotide binding]; DNA binding site 1136179001256 RNA-binding motif; other site 1136179001257 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07122 1136179001258 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1136179001259 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1136179001260 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 1136179001261 DNA binding residues [nucleotide binding] 1136179001262 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1136179001263 Transcription factor WhiB; Region: Whib; pfam02467 1136179001264 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1136179001265 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1136179001266 dimerization interface [polypeptide binding]; other site 1136179001267 DPS ferroxidase diiron center [ion binding]; other site 1136179001268 ion pore; other site 1136179001269 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 1136179001270 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1136179001271 DNA binding residues [nucleotide binding] 1136179001272 putative dimer interface [polypeptide binding]; other site 1136179001273 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 1136179001274 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1136179001275 active site 1136179001276 homotetramer interface [polypeptide binding]; other site 1136179001277 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 1136179001278 anti sigma factor interaction site; other site 1136179001279 regulatory phosphorylation site [posttranslational modification]; other site 1136179001280 Asp23 family; Region: Asp23; pfam03780 1136179001281 Asp23 family; Region: Asp23; cl00574 1136179001282 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1136179001283 CsbD-like; Region: CsbD; pfam05532 1136179001284 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 1136179001285 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1136179001286 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1136179001287 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1136179001288 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1136179001289 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1136179001290 Chain length determinant protein; Region: Wzz; cl15801 1136179001291 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1136179001292 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1136179001293 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1136179001294 O-Antigen ligase; Region: Wzy_C; pfam04932 1136179001295 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1136179001296 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1136179001297 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1136179001298 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1136179001299 NADP-binding site; other site 1136179001300 homotetramer interface [polypeptide binding]; other site 1136179001301 substrate binding site [chemical binding]; other site 1136179001302 homodimer interface [polypeptide binding]; other site 1136179001303 active site 1136179001304 YibE/F-like protein; Region: YibE_F; pfam07907 1136179001305 aminotransferase AlaT; Validated; Region: PRK09265 1136179001306 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 1136179001307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179001308 homodimer interface [polypeptide binding]; other site 1136179001309 catalytic residue [active] 1136179001310 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1136179001311 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1136179001312 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 1136179001313 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1136179001314 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1136179001315 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1136179001316 nucleotide binding site [chemical binding]; other site 1136179001317 NEF interaction site [polypeptide binding]; other site 1136179001318 SBD interface [polypeptide binding]; other site 1136179001319 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1136179001320 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 1136179001321 dimer interface [polypeptide binding]; other site 1136179001322 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1136179001323 chaperone protein DnaJ; Provisional; Region: PRK14279 1136179001324 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 1136179001325 HSP70 interaction site [polypeptide binding]; other site 1136179001326 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1136179001327 Zn binding sites [ion binding]; other site 1136179001328 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1136179001329 dimer interface [polypeptide binding]; other site 1136179001330 Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators; Region: HTH_HspR-like; cd01279 1136179001331 DNA binding residues [nucleotide binding] 1136179001332 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1136179001333 putative dimer interface [polypeptide binding]; other site 1136179001334 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1136179001335 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 1136179001336 ligand binding site [chemical binding]; other site 1136179001337 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1136179001338 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 1136179001339 TM-ABC transporter signature motif; other site 1136179001340 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 1136179001341 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1136179001342 TM-ABC transporter signature motif; other site 1136179001343 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1136179001344 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1136179001345 Walker A/P-loop; other site 1136179001346 ATP binding site [chemical binding]; other site 1136179001347 Q-loop/lid; other site 1136179001348 ABC transporter signature motif; other site 1136179001349 Walker B; other site 1136179001350 D-loop; other site 1136179001351 H-loop/switch region; other site 1136179001352 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1136179001353 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1136179001354 Walker A/P-loop; other site 1136179001355 ATP binding site [chemical binding]; other site 1136179001356 Q-loop/lid; other site 1136179001357 ABC transporter signature motif; other site 1136179001358 Walker B; other site 1136179001359 D-loop; other site 1136179001360 H-loop/switch region; other site 1136179001361 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1136179001362 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1136179001363 active site 1136179001364 FMN binding site [chemical binding]; other site 1136179001365 substrate binding site [chemical binding]; other site 1136179001366 putative catalytic residue [active] 1136179001367 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179001368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179001369 active site 1136179001370 phosphorylation site [posttranslational modification] 1136179001371 intermolecular recognition site; other site 1136179001372 dimerization interface [polypeptide binding]; other site 1136179001373 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 1136179001374 DNA binding residues [nucleotide binding] 1136179001375 dimerization interface [polypeptide binding]; other site 1136179001376 flavodoxin; Provisional; Region: PRK06242 1136179001377 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 1136179001378 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1136179001379 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179001380 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179001381 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1136179001382 Citrate transporter; Region: CitMHS; pfam03600 1136179001383 Nitric oxide synthase (NOS) produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine (NHA) as an...; Region: NOS_oxygenase; cd00575 1136179001384 active site 1136179001385 dimer interface [polypeptide binding]; other site 1136179001386 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 1136179001387 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 1136179001388 FAD binding pocket [chemical binding]; other site 1136179001389 FAD binding motif [chemical binding]; other site 1136179001390 phosphate binding motif [ion binding]; other site 1136179001391 beta-alpha-beta structure motif; other site 1136179001392 NAD binding pocket [chemical binding]; other site 1136179001393 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1136179001394 Clp amino terminal domain; Region: Clp_N; pfam02861 1136179001395 Clp amino terminal domain; Region: Clp_N; pfam02861 1136179001396 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 1136179001397 Walker A motif; other site 1136179001398 ATP binding site [chemical binding]; other site 1136179001399 Walker B motif; other site 1136179001400 arginine finger; other site 1136179001401 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 1136179001402 Walker A motif; other site 1136179001403 ATP binding site [chemical binding]; other site 1136179001404 Walker B motif; other site 1136179001405 arginine finger; other site 1136179001406 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1136179001407 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1136179001408 active site 1136179001409 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 1136179001410 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1136179001411 putative substrate translocation pore; other site 1136179001412 MarR family; Region: MarR; pfam01047 1136179001413 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1136179001414 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1136179001415 putative acyl-acceptor binding pocket; other site 1136179001416 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1136179001417 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 1136179001418 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1136179001419 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1136179001420 active site 1136179001421 non-prolyl cis peptide bond; other site 1136179001422 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1136179001423 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1136179001424 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1136179001425 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1136179001426 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1136179001427 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1136179001428 active site 1136179001429 intersubunit interface [polypeptide binding]; other site 1136179001430 zinc binding site [ion binding]; other site 1136179001431 Na+ binding site [ion binding]; other site 1136179001432 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 1136179001433 Predicted membrane protein [Function unknown]; Region: COG4129 1136179001434 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1136179001435 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1136179001436 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 1136179001437 S-adenosylmethionine binding site [chemical binding]; other site 1136179001438 Peptidase family M50; Region: Peptidase_M50; pfam02163 1136179001439 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 1136179001440 active site 1136179001441 putative substrate binding region [chemical binding]; other site 1136179001442 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1136179001443 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 1136179001444 GDP-binding site [chemical binding]; other site 1136179001445 ACT binding site; other site 1136179001446 IMP binding site; other site 1136179001447 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 1136179001448 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 1136179001449 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179001450 DNA-binding site [nucleotide binding]; DNA binding site 1136179001451 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 1136179001452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179001453 homodimer interface [polypeptide binding]; other site 1136179001454 catalytic residue [active] 1136179001455 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1136179001456 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1136179001457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179001458 Walker A/P-loop; other site 1136179001459 ATP binding site [chemical binding]; other site 1136179001460 Q-loop/lid; other site 1136179001461 ABC transporter signature motif; other site 1136179001462 Walker B; other site 1136179001463 D-loop; other site 1136179001464 H-loop/switch region; other site 1136179001465 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1136179001466 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1136179001467 metal binding site [ion binding]; metal-binding site 1136179001468 active site 1136179001469 I-site; other site 1136179001470 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1136179001471 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 1136179001472 active site 1136179001473 ferredoxin-NADP+ reductase; Region: PLN02852 1136179001474 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1136179001475 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 1136179001476 active site residue [active] 1136179001477 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1136179001478 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179001479 dimer interface [polypeptide binding]; other site 1136179001480 conserved gate region; other site 1136179001481 putative PBP binding loops; other site 1136179001482 ABC-ATPase subunit interface; other site 1136179001483 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 1136179001484 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1136179001485 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1136179001486 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179001487 dimer interface [polypeptide binding]; other site 1136179001488 conserved gate region; other site 1136179001489 putative PBP binding loops; other site 1136179001490 ABC-ATPase subunit interface; other site 1136179001491 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1136179001492 active site 1136179001493 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1136179001494 non-prolyl cis peptide bond; other site 1136179001495 RDD family; Region: RDD; pfam06271 1136179001496 Domain of unknown function (DUF202); Region: DUF202; cl09954 1136179001497 glucose-6-phosphate dehydrogenase (coenzyme-F420); Region: F420_G6P_DH; TIGR03554 1136179001498 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1136179001499 phosphate acetyltransferase; Reviewed; Region: PRK05632 1136179001500 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1136179001501 DRTGG domain; Region: DRTGG; pfam07085 1136179001502 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1136179001503 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 1136179001504 active site 1136179001505 thiamine phosphate binding site [chemical binding]; other site 1136179001506 pyrophosphate binding site [ion binding]; other site 1136179001507 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1136179001508 thiS-thiF/thiG interaction site; other site 1136179001509 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1136179001510 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1136179001511 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1136179001512 cyclase homology domain; Region: CHD; cd07302 1136179001513 nucleotidyl binding site; other site 1136179001514 metal binding site [ion binding]; metal-binding site 1136179001515 dimer interface [polypeptide binding]; other site 1136179001516 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 1136179001517 dimer interface [polypeptide binding]; other site 1136179001518 substrate binding site [chemical binding]; other site 1136179001519 ATP binding site [chemical binding]; other site 1136179001520 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1136179001521 ThiC-associated domain; Region: ThiC-associated; pfam13667 1136179001522 ThiC family; Region: ThiC; pfam01964 1136179001523 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1136179001524 putative catalytic site [active] 1136179001525 putative phosphate binding site [ion binding]; other site 1136179001526 active site 1136179001527 metal binding site A [ion binding]; metal-binding site 1136179001528 DNA binding site [nucleotide binding] 1136179001529 putative AP binding site [nucleotide binding]; other site 1136179001530 putative metal binding site B [ion binding]; other site 1136179001531 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1136179001532 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1136179001533 Coenzyme A binding pocket [chemical binding]; other site 1136179001534 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 1136179001535 active site 1136179001536 catalytic residues [active] 1136179001537 metal binding site [ion binding]; metal-binding site 1136179001538 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 1136179001539 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1136179001540 E-class dimer interface [polypeptide binding]; other site 1136179001541 P-class dimer interface [polypeptide binding]; other site 1136179001542 active site 1136179001543 Cu2+ binding site [ion binding]; other site 1136179001544 Zn2+ binding site [ion binding]; other site 1136179001545 carboxylate-amine ligase; Provisional; Region: PRK13517 1136179001546 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1136179001547 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1136179001548 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK07948 1136179001549 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1136179001550 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07946 1136179001551 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 1136179001552 nudix motif; other site 1136179001553 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1136179001554 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1136179001555 tetramer interface [polypeptide binding]; other site 1136179001556 active site 1136179001557 Mg2+/Mn2+ binding site [ion binding]; other site 1136179001558 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 1136179001559 Cell division protein 48 (CDC48) N-terminal domain; Region: CDC48_N; smart01073 1136179001560 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 1136179001561 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 1136179001562 Walker A motif; other site 1136179001563 ATP binding site [chemical binding]; other site 1136179001564 Walker B motif; other site 1136179001565 arginine finger; other site 1136179001566 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 1136179001567 Walker A motif; other site 1136179001568 ATP binding site [chemical binding]; other site 1136179001569 Walker B motif; other site 1136179001570 arginine finger; other site 1136179001571 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1136179001572 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1136179001573 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1136179001574 putative proline-specific permease; Provisional; Region: proY; PRK10580 1136179001575 Spore germination protein; Region: Spore_permease; cl17796 1136179001576 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1136179001577 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1136179001578 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 1136179001579 ring oligomerisation interface [polypeptide binding]; other site 1136179001580 ATP/Mg binding site [chemical binding]; other site 1136179001581 stacking interactions; other site 1136179001582 hinge regions; other site 1136179001583 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1136179001584 Putative esterase; Region: Esterase; pfam00756 1136179001585 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 1136179001586 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1136179001587 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1136179001588 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1136179001589 Predicted transcriptional regulators [Transcription]; Region: COG1733 1136179001590 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1136179001591 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179001592 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179001593 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1136179001594 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1136179001595 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1136179001596 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1136179001597 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1136179001598 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1136179001599 Walker A/P-loop; other site 1136179001600 ATP binding site [chemical binding]; other site 1136179001601 Q-loop/lid; other site 1136179001602 ABC transporter signature motif; other site 1136179001603 Walker B; other site 1136179001604 D-loop; other site 1136179001605 H-loop/switch region; other site 1136179001606 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1136179001607 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1136179001608 Walker A/P-loop; other site 1136179001609 ATP binding site [chemical binding]; other site 1136179001610 Q-loop/lid; other site 1136179001611 ABC transporter signature motif; other site 1136179001612 Walker B; other site 1136179001613 D-loop; other site 1136179001614 H-loop/switch region; other site 1136179001615 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1136179001616 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 1136179001617 TM-ABC transporter signature motif; other site 1136179001618 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 1136179001619 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1136179001620 TM-ABC transporter signature motif; other site 1136179001621 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1136179001622 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1136179001623 putative ligand binding site [chemical binding]; other site 1136179001624 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1136179001625 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 1136179001626 ligand binding site [chemical binding]; other site 1136179001627 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1136179001628 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1136179001629 Walker A/P-loop; other site 1136179001630 ATP binding site [chemical binding]; other site 1136179001631 Q-loop/lid; other site 1136179001632 ABC transporter signature motif; other site 1136179001633 Walker B; other site 1136179001634 D-loop; other site 1136179001635 H-loop/switch region; other site 1136179001636 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1136179001637 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179001638 acyl-activating enzyme (AAE) consensus motif; other site 1136179001639 AMP binding site [chemical binding]; other site 1136179001640 active site 1136179001641 CoA binding site [chemical binding]; other site 1136179001642 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1136179001643 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 1136179001644 non-specific DNA binding site [nucleotide binding]; other site 1136179001645 salt bridge; other site 1136179001646 sequence-specific DNA binding site [nucleotide binding]; other site 1136179001647 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1136179001648 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1136179001649 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1136179001650 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 1136179001651 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 1136179001652 isocitrate lyase; Provisional; Region: PRK15063 1136179001653 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1136179001654 tetramer interface [polypeptide binding]; other site 1136179001655 active site 1136179001656 Mg2+/Mn2+ binding site [ion binding]; other site 1136179001657 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 1136179001658 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1136179001659 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1136179001660 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1136179001661 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 1136179001662 THF binding site; other site 1136179001663 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 1136179001664 substrate binding site [chemical binding]; other site 1136179001665 THF binding site; other site 1136179001666 zinc-binding site [ion binding]; other site 1136179001667 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1136179001668 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1136179001669 putative NAD(P) binding site [chemical binding]; other site 1136179001670 putative substrate binding site [chemical binding]; other site 1136179001671 catalytic Zn binding site [ion binding]; other site 1136179001672 structural Zn binding site [ion binding]; other site 1136179001673 dimer interface [polypeptide binding]; other site 1136179001674 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07122 1136179001675 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1136179001676 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1136179001677 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 1136179001678 DNA binding residues [nucleotide binding] 1136179001679 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179001680 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179001681 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1136179001682 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 1136179001683 non-specific DNA binding site [nucleotide binding]; other site 1136179001684 salt bridge; other site 1136179001685 sequence-specific DNA binding site [nucleotide binding]; other site 1136179001686 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 1136179001687 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1136179001688 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 1136179001689 putative active site [active] 1136179001690 catalytic triad [active] 1136179001691 putative dimer interface [polypeptide binding]; other site 1136179001692 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 1136179001693 D-galactonate transporter; Region: 2A0114; TIGR00893 1136179001694 putative substrate translocation pore; other site 1136179001695 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1136179001696 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1136179001697 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1136179001698 putative active site [active] 1136179001699 putative substrate binding site [chemical binding]; other site 1136179001700 putative cosubstrate binding site; other site 1136179001701 catalytic site [active] 1136179001702 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1136179001703 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 1136179001704 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 1136179001705 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1136179001706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179001707 NAD(P) binding site [chemical binding]; other site 1136179001708 active site 1136179001709 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1136179001710 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1136179001711 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1136179001712 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1136179001713 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1136179001714 4-coumarate--CoA ligase; Region: PLN02246 1136179001715 4-Coumarate-CoA Ligase (4CL); Region: 4CL; cd05904 1136179001716 acyl-activating enzyme (AAE) consensus motif; other site 1136179001717 active site 1136179001718 putative CoA binding site [chemical binding]; other site 1136179001719 AMP binding site [chemical binding]; other site 1136179001720 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 1136179001721 catalytic core [active] 1136179001722 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 1136179001723 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1136179001724 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 1136179001725 dimer interface [polypeptide binding]; other site 1136179001726 phosphorylation site [posttranslational modification] 1136179001727 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179001728 ATP binding site [chemical binding]; other site 1136179001729 Mg2+ binding site [ion binding]; other site 1136179001730 G-X-G motif; other site 1136179001731 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179001732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179001733 active site 1136179001734 phosphorylation site [posttranslational modification] 1136179001735 intermolecular recognition site; other site 1136179001736 dimerization interface [polypeptide binding]; other site 1136179001737 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 1136179001738 DNA binding site [nucleotide binding] 1136179001739 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1136179001740 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1136179001741 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1136179001742 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1136179001743 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1136179001744 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1136179001745 putative acyl-acceptor binding pocket; other site 1136179001746 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1136179001747 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1136179001748 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179001749 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179001750 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 1136179001751 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1136179001752 active site 2 [active] 1136179001753 active site 1 [active] 1136179001754 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1136179001755 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1136179001756 DNA binding domain, excisionase family; Region: excise; TIGR01764 1136179001757 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1136179001758 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 1136179001759 putative NAD(P) binding site [chemical binding]; other site 1136179001760 active site 1136179001761 putative substrate binding site [chemical binding]; other site 1136179001762 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1136179001763 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1136179001764 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1136179001765 CoA binding domain; Region: CoA_binding; smart00881 1136179001766 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1136179001767 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; cl17708 1136179001768 domain interfaces; other site 1136179001769 active site 1136179001770 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cd09815 1136179001771 active site 1136179001772 homodimer interface [polypeptide binding]; other site 1136179001773 SAM binding site [chemical binding]; other site 1136179001774 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1136179001775 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 1136179001776 active site 1136179001777 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 1136179001778 putative homodimer interface [polypeptide binding]; other site 1136179001779 putative homotetramer interface [polypeptide binding]; other site 1136179001780 putative allosteric switch controlling residues; other site 1136179001781 putative metal binding site [ion binding]; other site 1136179001782 putative homodimer-homodimer interface [polypeptide binding]; other site 1136179001783 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179001784 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179001785 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1136179001786 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1136179001787 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1136179001788 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1136179001789 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179001790 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179001791 active site 1136179001792 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 1136179001793 catalytic core [active] 1136179001794 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 1136179001795 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1136179001796 catalytic residues [active] 1136179001797 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1136179001798 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1136179001799 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1136179001800 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1136179001801 DNA binding residues [nucleotide binding] 1136179001802 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1136179001803 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 1136179001804 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1136179001805 catalytic residue [active] 1136179001806 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1136179001807 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1136179001808 putative acyl-acceptor binding pocket; other site 1136179001809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2739; cl17893 1136179001810 Clp amino terminal domain; Region: Clp_N; pfam02861 1136179001811 Predicted membrane protein [Function unknown]; Region: COG1950 1136179001812 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1136179001813 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1136179001814 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179001815 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1136179001816 Walker A/P-loop; other site 1136179001817 ATP binding site [chemical binding]; other site 1136179001818 Q-loop/lid; other site 1136179001819 ABC transporter signature motif; other site 1136179001820 Walker B; other site 1136179001821 D-loop; other site 1136179001822 H-loop/switch region; other site 1136179001823 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1136179001824 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 1136179001825 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 1136179001826 Nucleopolyhedrovirus protein of unknown function (DUF912); Region: DUF912; pfam06024 1136179001827 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1136179001828 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 1136179001829 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1136179001830 TM-ABC transporter signature motif; other site 1136179001831 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1136179001832 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 1136179001833 TM-ABC transporter signature motif; other site 1136179001834 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1136179001835 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1136179001836 active site 1136179001837 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179001838 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1136179001839 substrate binding site [chemical binding]; other site 1136179001840 oxyanion hole (OAH) forming residues; other site 1136179001841 trimer interface [polypeptide binding]; other site 1136179001842 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 1136179001843 CoenzymeA binding site [chemical binding]; other site 1136179001844 subunit interaction site [polypeptide binding]; other site 1136179001845 PHB binding site; other site 1136179001846 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1136179001847 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 1136179001848 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1136179001849 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 1136179001850 S-adenosylmethionine binding site [chemical binding]; other site 1136179001851 heat shock protein HtpX; Provisional; Region: PRK03072 1136179001852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1136179001853 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1136179001854 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 1136179001855 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 1136179001856 active site 1136179001857 catalytic site [active] 1136179001858 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 1136179001859 active site 1136179001860 catalytic site [active] 1136179001861 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1136179001862 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1136179001863 putative homodimer interface [polypeptide binding]; other site 1136179001864 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1136179001865 heterodimer interface [polypeptide binding]; other site 1136179001866 homodimer interface [polypeptide binding]; other site 1136179001867 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1136179001868 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 1136179001869 23S rRNA interface [nucleotide binding]; other site 1136179001870 L7/L12 interface [polypeptide binding]; other site 1136179001871 putative thiostrepton binding site; other site 1136179001872 L25 interface [polypeptide binding]; other site 1136179001873 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 1136179001874 mRNA/rRNA interface [nucleotide binding]; other site 1136179001875 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 1136179001876 core dimer interface [polypeptide binding]; other site 1136179001877 peripheral dimer interface [polypeptide binding]; other site 1136179001878 L10 interface [polypeptide binding]; other site 1136179001879 L11 interface [polypeptide binding]; other site 1136179001880 putative EF-Tu interaction site [polypeptide binding]; other site 1136179001881 putative EF-G interaction site [polypeptide binding]; other site 1136179001882 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1136179001883 Permease; Region: Permease; pfam02405 1136179001884 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1136179001885 Permease; Region: Permease; pfam02405 1136179001886 mce related protein; Region: MCE; pfam02470 1136179001887 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 1136179001888 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1136179001889 mce related protein; Region: MCE; pfam02470 1136179001890 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1136179001891 mce related protein; Region: MCE; pfam02470 1136179001892 mce related protein; Region: MCE; pfam02470 1136179001893 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 1136179001894 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1136179001895 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1136179001896 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1136179001897 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 1136179001898 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 1136179001899 RPB10 interaction site [polypeptide binding]; other site 1136179001900 RPB1 interaction site [polypeptide binding]; other site 1136179001901 RPB11 interaction site [polypeptide binding]; other site 1136179001902 RPB3 interaction site [polypeptide binding]; other site 1136179001903 RPB12 interaction site [polypeptide binding]; other site 1136179001904 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1136179001905 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1136179001906 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1136179001907 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1136179001908 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1136179001909 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1136179001910 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1136179001911 G-loop; other site 1136179001912 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1136179001913 DNA binding site [nucleotide binding] 1136179001914 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1136179001915 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_16; cd07263 1136179001916 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1136179001917 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 1136179001918 catalytic core [active] 1136179001919 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 1136179001920 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 1136179001921 active site 2 [active] 1136179001922 active site 1 [active] 1136179001923 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1136179001924 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 1136179001925 putative NAD(P) binding site [chemical binding]; other site 1136179001926 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1136179001927 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1136179001928 NAD(P) binding site [chemical binding]; other site 1136179001929 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1136179001930 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1136179001931 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 1136179001932 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1136179001933 putative substrate translocation pore; other site 1136179001934 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 1136179001935 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 1136179001936 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1136179001937 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1136179001938 MarR family; Region: MarR_2; cl17246 1136179001939 enoyl-CoA hydratase; Provisional; Region: PRK09245 1136179001940 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179001941 substrate binding site [chemical binding]; other site 1136179001942 oxyanion hole (OAH) forming residues; other site 1136179001943 trimer interface [polypeptide binding]; other site 1136179001944 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1136179001945 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1136179001946 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1136179001947 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179001948 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179001949 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 1136179001950 S17 interaction site [polypeptide binding]; other site 1136179001951 S8 interaction site; other site 1136179001952 16S rRNA interaction site [nucleotide binding]; other site 1136179001953 streptomycin interaction site [chemical binding]; other site 1136179001954 23S rRNA interaction site [nucleotide binding]; other site 1136179001955 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1136179001956 30S ribosomal protein S7; Validated; Region: PRK05302 1136179001957 elongation factor G; Reviewed; Region: PRK00007 1136179001958 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1136179001959 G1 box; other site 1136179001960 putative GEF interaction site [polypeptide binding]; other site 1136179001961 GTP/Mg2+ binding site [chemical binding]; other site 1136179001962 Switch I region; other site 1136179001963 G2 box; other site 1136179001964 G3 box; other site 1136179001965 Switch II region; other site 1136179001966 G4 box; other site 1136179001967 G5 box; other site 1136179001968 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 1136179001969 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 1136179001970 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 1136179001971 elongation factor Tu; Reviewed; Region: PRK00049 1136179001972 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1136179001973 G1 box; other site 1136179001974 GEF interaction site [polypeptide binding]; other site 1136179001975 GTP/Mg2+ binding site [chemical binding]; other site 1136179001976 Switch I region; other site 1136179001977 G2 box; other site 1136179001978 G3 box; other site 1136179001979 Switch II region; other site 1136179001980 G4 box; other site 1136179001981 G5 box; other site 1136179001982 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 1136179001983 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 1136179001984 Antibiotic Binding Site [chemical binding]; other site 1136179001985 Asp23 family; Region: Asp23; pfam03780 1136179001986 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1136179001987 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1136179001988 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1136179001989 FAD binding pocket [chemical binding]; other site 1136179001990 FAD binding motif [chemical binding]; other site 1136179001991 phosphate binding motif [ion binding]; other site 1136179001992 beta-alpha-beta structure motif; other site 1136179001993 NAD(p) ribose binding residues [chemical binding]; other site 1136179001994 NAD binding pocket [chemical binding]; other site 1136179001995 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1136179001996 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 1136179001997 catalytic loop [active] 1136179001998 iron binding site [ion binding]; other site 1136179001999 NDMA-dependent methanol dehydrogenase; Region: NDMA_methanol; TIGR04266 1136179002000 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1136179002001 active site 1136179002002 NAD binding site [chemical binding]; other site 1136179002003 metal binding site [ion binding]; metal-binding site 1136179002004 RNHCP domain; Region: RNHCP; pfam12647 1136179002005 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179002006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179002007 active site 1136179002008 phosphorylation site [posttranslational modification] 1136179002009 intermolecular recognition site; other site 1136179002010 dimerization interface [polypeptide binding]; other site 1136179002011 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 1136179002012 DNA binding residues [nucleotide binding] 1136179002013 dimerization interface [polypeptide binding]; other site 1136179002014 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1136179002015 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 1136179002016 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1136179002017 putative active site [active] 1136179002018 putative catalytic site [active] 1136179002019 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1136179002020 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 1136179002021 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1136179002022 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 1136179002023 S-adenosylmethionine binding site [chemical binding]; other site 1136179002024 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 1136179002025 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179002026 putative mycofactocin binding protein MftB; Region: mycofact_MftB; TIGR03967 1136179002027 mycofactocin radical SAM maturase; Region: mycofact_rSAM; TIGR03962 1136179002028 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 1136179002029 FeS/SAM binding site; other site 1136179002030 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1136179002031 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1136179002032 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1136179002033 NAD(P) binding site [chemical binding]; other site 1136179002034 catalytic residues [active] 1136179002035 ethanolamine permease; Region: 2A0305; TIGR00908 1136179002036 metabolite-proton symporter; Region: 2A0106; TIGR00883 1136179002037 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 1136179002038 putative substrate translocation pore; other site 1136179002039 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1136179002040 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1136179002041 NAD(P) binding site [chemical binding]; other site 1136179002042 catalytic residues [active] 1136179002043 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 1136179002044 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1136179002045 NAD binding site [chemical binding]; other site 1136179002046 catalytic Zn binding site [ion binding]; other site 1136179002047 substrate binding site [chemical binding]; other site 1136179002048 structural Zn binding site [ion binding]; other site 1136179002049 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1136179002050 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1136179002051 synthetase active site [active] 1136179002052 NTP binding site [chemical binding]; other site 1136179002053 metal binding site [ion binding]; metal-binding site 1136179002054 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179002055 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179002056 active site 1136179002057 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 1136179002058 CoenzymeA binding site [chemical binding]; other site 1136179002059 subunit interaction site [polypeptide binding]; other site 1136179002060 PHB binding site; other site 1136179002061 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1136179002062 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1136179002063 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1136179002064 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1136179002065 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1136179002066 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1136179002067 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1136179002068 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1136179002069 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 1136179002070 putative translocon binding site; other site 1136179002071 protein-rRNA interface [nucleotide binding]; other site 1136179002072 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1136179002073 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 1136179002074 G-X-X-G motif; other site 1136179002075 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1136179002076 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 1136179002077 23S rRNA interface [nucleotide binding]; other site 1136179002078 5S rRNA interface [nucleotide binding]; other site 1136179002079 putative antibiotic binding site [chemical binding]; other site 1136179002080 L25 interface [polypeptide binding]; other site 1136179002081 L27 interface [polypeptide binding]; other site 1136179002082 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 1136179002083 23S rRNA interface [nucleotide binding]; other site 1136179002084 putative translocon interaction site; other site 1136179002085 signal recognition particle (SRP54) interaction site; other site 1136179002086 L23 interface [polypeptide binding]; other site 1136179002087 trigger factor interaction site; other site 1136179002088 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1136179002089 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1136179002090 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1136179002091 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1136179002092 RNA binding site [nucleotide binding]; other site 1136179002093 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1136179002094 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1136179002095 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1136179002096 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1136179002097 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1136179002098 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1136179002099 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1136179002100 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1136179002101 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 1136179002102 5S rRNA interface [nucleotide binding]; other site 1136179002103 L27 interface [polypeptide binding]; other site 1136179002104 23S rRNA interface [nucleotide binding]; other site 1136179002105 L5 interface [polypeptide binding]; other site 1136179002106 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1136179002107 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1136179002108 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1136179002109 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 1136179002110 23S rRNA binding site [nucleotide binding]; other site 1136179002111 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1136179002112 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1136179002113 SecY translocase; Region: SecY; pfam00344 1136179002114 adenylate kinase; Reviewed; Region: adk; PRK00279 1136179002115 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 1136179002116 AMP-binding site [chemical binding]; other site 1136179002117 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1136179002118 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 1136179002119 active site 1136179002120 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1136179002121 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1136179002122 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1136179002123 30S ribosomal protein S11; Validated; Region: PRK05309 1136179002124 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1136179002125 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1136179002126 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 1136179002127 RNA binding surface [nucleotide binding]; other site 1136179002128 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1136179002129 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1136179002130 alphaNTD - beta interaction site [polypeptide binding]; other site 1136179002131 alphaNTD homodimer interface [polypeptide binding]; other site 1136179002132 alphaNTD - beta' interaction site [polypeptide binding]; other site 1136179002133 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1136179002134 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1136179002135 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 1136179002136 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 1136179002137 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 1136179002138 23S rRNA interface [nucleotide binding]; other site 1136179002139 L3 interface [polypeptide binding]; other site 1136179002140 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1136179002141 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 1136179002142 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 1136179002143 active site 1136179002144 substrate binding site [chemical binding]; other site 1136179002145 metal binding site [ion binding]; metal-binding site 1136179002146 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1136179002147 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1136179002148 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1136179002149 alanine racemase; Reviewed; Region: alr; PRK00053 1136179002150 active site 1136179002151 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1136179002152 dimer interface [polypeptide binding]; other site 1136179002153 substrate binding site [chemical binding]; other site 1136179002154 catalytic residues [active] 1136179002155 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1136179002156 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1136179002157 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1136179002158 nucleotide binding site [chemical binding]; other site 1136179002159 metallophosphoesterase, PPA1498 family; Region: P_acnes_RR; TIGR03767 1136179002160 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1136179002161 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 1136179002162 oligomerisation interface [polypeptide binding]; other site 1136179002163 mobile loop; other site 1136179002164 roof hairpin; other site 1136179002165 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1136179002166 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 1136179002167 ring oligomerisation interface [polypeptide binding]; other site 1136179002168 ATP/Mg binding site [chemical binding]; other site 1136179002169 stacking interactions; other site 1136179002170 hinge regions; other site 1136179002171 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1136179002172 Transcription factor WhiB; Region: Whib; pfam02467 1136179002173 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 1136179002174 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1136179002175 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 1136179002176 DNA binding residues [nucleotide binding] 1136179002177 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1136179002178 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1136179002179 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1136179002180 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1136179002181 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 1136179002182 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1136179002183 putative substrate translocation pore; other site 1136179002184 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1136179002185 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 1136179002186 putative substrate translocation pore; other site 1136179002187 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1136179002188 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 1136179002189 dimerization interface [polypeptide binding]; other site 1136179002190 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 1136179002191 dimer interface [polypeptide binding]; other site 1136179002192 phosphorylation site [posttranslational modification] 1136179002193 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179002194 ATP binding site [chemical binding]; other site 1136179002195 Mg2+ binding site [ion binding]; other site 1136179002196 G-X-G motif; other site 1136179002197 PAP2 superfamily; Region: PAP2; pfam01569 1136179002198 active site 1136179002199 Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Region: RNRR2_Rv0233_like; cd07911 1136179002200 active site 1136179002201 diiron metal binding site [ion binding]; other site 1136179002202 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1136179002203 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08579 1136179002204 short chain dehydrogenase; Provisional; Region: PRK07063 1136179002205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179002206 NAD(P) binding site [chemical binding]; other site 1136179002207 active site 1136179002208 CAAX protease self-immunity; Region: Abi; pfam02517 1136179002209 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 1136179002210 active site residue [active] 1136179002211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1136179002212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1136179002213 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 1136179002214 putative dimerization interface [polypeptide binding]; other site 1136179002215 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1136179002216 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1136179002217 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 1136179002218 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1136179002219 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1136179002220 homodimer interface [polypeptide binding]; other site 1136179002221 NADP binding site [chemical binding]; other site 1136179002222 substrate binding site [chemical binding]; other site 1136179002223 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 1136179002224 isocitrate dehydrogenase; Validated; Region: PRK08299 1136179002225 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1136179002226 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1136179002227 active site 1136179002228 HIGH motif; other site 1136179002229 dimer interface [polypeptide binding]; other site 1136179002230 KMSKS motif; other site 1136179002231 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1136179002232 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1136179002233 tetrameric interface [polypeptide binding]; other site 1136179002234 NAD binding site [chemical binding]; other site 1136179002235 catalytic residues [active] 1136179002236 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1136179002237 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179002238 DNA-binding site [nucleotide binding]; DNA binding site 1136179002239 UTRA domain; Region: UTRA; pfam07702 1136179002240 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1136179002241 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 1136179002242 DNA interaction; other site 1136179002243 Metal-binding active site; metal-binding site 1136179002244 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1136179002245 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1136179002246 putative ligand binding site [chemical binding]; other site 1136179002247 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1136179002248 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 1136179002249 TM-ABC transporter signature motif; other site 1136179002250 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1136179002251 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1136179002252 Walker A/P-loop; other site 1136179002253 ATP binding site [chemical binding]; other site 1136179002254 Q-loop/lid; other site 1136179002255 ABC transporter signature motif; other site 1136179002256 Walker B; other site 1136179002257 D-loop; other site 1136179002258 H-loop/switch region; other site 1136179002259 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1136179002260 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1136179002261 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 1136179002262 L-aspartate oxidase; Provisional; Region: PRK06175 1136179002263 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1136179002264 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase D (SdhD)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhD_like; cd03500 1136179002265 putative Iron-sulfur protein interface [polypeptide binding]; other site 1136179002266 putative proximal heme binding site [chemical binding]; other site 1136179002267 putative SdhC-like subunit interface [polypeptide binding]; other site 1136179002268 putative distal heme binding site [chemical binding]; other site 1136179002269 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1136179002270 active site 1136179002271 catalytic motif [active] 1136179002272 Zn binding site [ion binding]; other site 1136179002273 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1136179002274 active site 1136179002275 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1136179002276 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1136179002277 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179002278 substrate binding site [chemical binding]; other site 1136179002279 oxyanion hole (OAH) forming residues; other site 1136179002280 trimer interface [polypeptide binding]; other site 1136179002281 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1136179002282 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 1136179002283 metal binding site [ion binding]; metal-binding site 1136179002284 putative dimer interface [polypeptide binding]; other site 1136179002285 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1136179002286 putative active site pocket [active] 1136179002287 dimerization interface [polypeptide binding]; other site 1136179002288 putative catalytic residue [active] 1136179002289 Coenzyme A transferase; Region: CoA_trans; cl17247 1136179002290 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1136179002291 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 1136179002292 metabolite-proton symporter; Region: 2A0106; TIGR00883 1136179002293 putative substrate translocation pore; other site 1136179002294 glycerol kinase; Provisional; Region: glpK; PRK00047 1136179002295 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 1136179002296 N- and C-terminal domain interface [polypeptide binding]; other site 1136179002297 active site 1136179002298 MgATP binding site [chemical binding]; other site 1136179002299 catalytic site [active] 1136179002300 metal binding site [ion binding]; metal-binding site 1136179002301 putative homotetramer interface [polypeptide binding]; other site 1136179002302 glycerol binding site [chemical binding]; other site 1136179002303 homodimer interface [polypeptide binding]; other site 1136179002304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 1136179002305 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1136179002306 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 1136179002307 putative DNA binding site [nucleotide binding]; other site 1136179002308 catalytic residue [active] 1136179002309 putative H2TH interface [polypeptide binding]; other site 1136179002310 putative catalytic residues [active] 1136179002311 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1136179002312 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1136179002313 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 1136179002314 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1136179002315 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1136179002316 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1136179002317 AsnC family; Region: AsnC_trans_reg; pfam01037 1136179002318 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1136179002319 active site 1136179002320 homotetramer interface [polypeptide binding]; other site 1136179002321 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1136179002322 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 1136179002323 Fe-S metabolism associated domain; Region: SufE; cl00951 1136179002324 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1136179002325 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1136179002326 active site residue [active] 1136179002327 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1136179002328 active site residue [active] 1136179002329 Condensation domain; Region: Condensation; pfam00668 1136179002330 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 1136179002331 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1136179002332 putative substrate translocation pore; other site 1136179002333 Maf-like protein; Region: Maf; pfam02545 1136179002334 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 1136179002335 active site 1136179002336 dimer interface [polypeptide binding]; other site 1136179002337 Acyl-CoA carboxylase epsilon subunit; Region: ACC_epsilon; pfam13822 1136179002338 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 1136179002339 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179002340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179002341 active site 1136179002342 phosphorylation site [posttranslational modification] 1136179002343 intermolecular recognition site; other site 1136179002344 dimerization interface [polypeptide binding]; other site 1136179002345 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 1136179002346 DNA binding site [nucleotide binding] 1136179002347 Predicted membrane protein [Function unknown]; Region: COG2246 1136179002348 GtrA-like protein; Region: GtrA; pfam04138 1136179002349 AIR carboxylase; Region: AIRC; pfam00731 1136179002350 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179002351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179002352 active site 1136179002353 phosphorylation site [posttranslational modification] 1136179002354 intermolecular recognition site; other site 1136179002355 dimerization interface [polypeptide binding]; other site 1136179002356 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 1136179002357 DNA binding residues [nucleotide binding] 1136179002358 dimerization interface [polypeptide binding]; other site 1136179002359 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1136179002360 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1136179002361 Probable Catalytic site; other site 1136179002362 metal-binding site 1136179002363 Members of the SGNH-hydrolase superfamily, 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_like_1; cd01832 1136179002364 active site 1136179002365 catalytic triad [active] 1136179002366 oxyanion hole [active] 1136179002367 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 1136179002368 nudix motif; other site 1136179002369 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 1136179002370 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 1136179002371 phosphate binding site [ion binding]; other site 1136179002372 dimer interface [polypeptide binding]; other site 1136179002373 substrate binding site [chemical binding]; other site 1136179002374 Transcription factor WhiB; Region: Whib; pfam02467 1136179002375 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 1136179002376 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 1136179002377 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 1136179002378 active site 1136179002379 substrate binding site [chemical binding]; other site 1136179002380 metal binding site [ion binding]; metal-binding site 1136179002381 Cation efflux family; Region: Cation_efflux; pfam01545 1136179002382 amino acid transporter; Region: 2A0306; TIGR00909 1136179002383 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 1136179002384 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 1136179002385 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1136179002386 Di-iron ligands [ion binding]; other site 1136179002387 Rubredoxin [Energy production and conversion]; Region: COG1773 1136179002388 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 1136179002389 iron binding site [ion binding]; other site 1136179002390 Rubredoxin [Energy production and conversion]; Region: COG1773 1136179002391 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 1136179002392 iron binding site [ion binding]; other site 1136179002393 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179002394 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179002395 active site 1136179002396 phosphorylation site [posttranslational modification] 1136179002397 intermolecular recognition site; other site 1136179002398 dimerization interface [polypeptide binding]; other site 1136179002399 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 1136179002400 DNA binding site [nucleotide binding] 1136179002401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1136179002402 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 1136179002403 dimerization interface [polypeptide binding]; other site 1136179002404 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 1136179002405 dimer interface [polypeptide binding]; other site 1136179002406 phosphorylation site [posttranslational modification] 1136179002407 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179002408 ATP binding site [chemical binding]; other site 1136179002409 Mg2+ binding site [ion binding]; other site 1136179002410 G-X-G motif; other site 1136179002411 lipoprotein LpqB; Provisional; Region: PRK13616 1136179002412 Sporulation and spore germination; Region: Germane; pfam10646 1136179002413 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1136179002414 30S subunit binding site; other site 1136179002415 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1136179002416 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1136179002417 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; cl17351 1136179002418 nucleotide binding region [chemical binding]; other site 1136179002419 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1136179002420 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1136179002421 putative di-iron ligands [ion binding]; other site 1136179002422 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1136179002423 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1136179002424 putative di-iron ligands [ion binding]; other site 1136179002425 Predicted GTPases [General function prediction only]; Region: COG1162 1136179002426 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1136179002427 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1136179002428 GTP/Mg2+ binding site [chemical binding]; other site 1136179002429 G4 box; other site 1136179002430 G5 box; other site 1136179002431 G1 box; other site 1136179002432 Switch I region; other site 1136179002433 G2 box; other site 1136179002434 G3 box; other site 1136179002435 Switch II region; other site 1136179002436 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1136179002437 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 1136179002438 putative deacylase active site [active] 1136179002439 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; TIGR03988 1136179002440 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 1136179002441 carboxyltransferase (CT) interaction site; other site 1136179002442 biotinylation site [posttranslational modification]; other site 1136179002443 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 1136179002444 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1136179002445 Histidine kinase; Region: HisKA_2; pfam07568 1136179002446 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179002447 ATP binding site [chemical binding]; other site 1136179002448 Mg2+ binding site [ion binding]; other site 1136179002449 G-X-G motif; other site 1136179002450 Transcription factor WhiB; Region: Whib; pfam02467 1136179002451 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1136179002452 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1136179002453 Coenzyme A binding pocket [chemical binding]; other site 1136179002454 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1136179002455 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 1136179002456 P-loop; other site 1136179002457 Magnesium ion binding site [ion binding]; other site 1136179002458 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 1136179002459 Magnesium ion binding site [ion binding]; other site 1136179002460 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1136179002461 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1136179002462 ATP binding site [chemical binding]; other site 1136179002463 putative Mg++ binding site [ion binding]; other site 1136179002464 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 1136179002465 nucleotide binding region [chemical binding]; other site 1136179002466 ATP-binding site [chemical binding]; other site 1136179002467 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1136179002468 dinuclear metal binding motif [ion binding]; other site 1136179002469 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 1136179002470 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179002471 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179002472 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 1136179002473 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 1136179002474 ATP binding site [chemical binding]; other site 1136179002475 substrate interface [chemical binding]; other site 1136179002476 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 1136179002477 active site residue [active] 1136179002478 TIGR02569 family protein; Region: TIGR02569_actnb 1136179002479 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1136179002480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179002481 DNA-binding site [nucleotide binding]; DNA binding site 1136179002482 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1136179002483 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1136179002484 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1136179002485 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1136179002486 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1136179002487 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1136179002488 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1136179002489 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated; Region: PRK07239 1136179002490 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 1136179002491 active site 1136179002492 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 1136179002493 DNA binding site [nucleotide binding] 1136179002494 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 1136179002495 active site 1136179002496 DNA binding site [nucleotide binding] 1136179002497 Predicted membrane protein [Function unknown]; Region: COG4270 1136179002498 Ion channel; Region: Ion_trans_2; pfam07885 1136179002499 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1136179002500 TrkA-N domain; Region: TrkA_N; pfam02254 1136179002501 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1136179002502 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1136179002503 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1136179002504 putative NADH binding site [chemical binding]; other site 1136179002505 putative active site [active] 1136179002506 nudix motif; other site 1136179002507 putative metal binding site [ion binding]; other site 1136179002508 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1136179002509 catalytic residues [active] 1136179002510 Transcription factor WhiB; Region: Whib; pfam02467 1136179002511 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1136179002512 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1136179002513 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179002514 DNA-binding site [nucleotide binding]; DNA binding site 1136179002515 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1136179002516 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1136179002517 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1136179002518 Walker A/P-loop; other site 1136179002519 ATP binding site [chemical binding]; other site 1136179002520 Q-loop/lid; other site 1136179002521 ABC transporter signature motif; other site 1136179002522 Walker B; other site 1136179002523 D-loop; other site 1136179002524 H-loop/switch region; other site 1136179002525 oxidase reductase; Provisional; Region: PTZ00273 1136179002526 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1136179002527 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1136179002528 acyl-CoA synthetase; Validated; Region: PRK07788 1136179002529 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179002530 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179002531 acyl-activating enzyme (AAE) consensus motif; other site 1136179002532 AMP binding site [chemical binding]; other site 1136179002533 active site 1136179002534 CoA binding site [chemical binding]; other site 1136179002535 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179002536 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179002537 active site 1136179002538 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1136179002539 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1136179002540 RF-1 domain; Region: RF-1; pfam00472 1136179002541 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1136179002542 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1136179002543 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1136179002544 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1136179002545 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 1136179002546 SmpB-tmRNA interface; other site 1136179002547 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1136179002548 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1136179002549 CrcB-like protein; Region: CRCB; pfam02537 1136179002550 camphor resistance protein CrcB; Provisional; Region: PRK14211 1136179002551 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1136179002552 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1136179002553 catalytic residues [active] 1136179002554 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1136179002555 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1136179002556 ATP binding site [chemical binding]; other site 1136179002557 putative Mg++ binding site [ion binding]; other site 1136179002558 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 1136179002559 nucleotide binding region [chemical binding]; other site 1136179002560 ATP-binding site [chemical binding]; other site 1136179002561 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1136179002562 MoaE homodimer interface [polypeptide binding]; other site 1136179002563 MoaD interaction [polypeptide binding]; other site 1136179002564 active site residues [active] 1136179002565 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1136179002566 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 1136179002567 homodimer interface [polypeptide binding]; other site 1136179002568 NAD binding pocket [chemical binding]; other site 1136179002569 ATP binding pocket [chemical binding]; other site 1136179002570 Mg binding site [ion binding]; other site 1136179002571 active-site loop [active] 1136179002572 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179002573 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179002574 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1136179002575 Predicted flavoprotein [General function prediction only]; Region: COG0431 1136179002576 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1136179002577 catalytic residues [active] 1136179002578 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1136179002579 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1136179002580 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1136179002581 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1136179002582 active site 1136179002583 dimer interface [polypeptide binding]; other site 1136179002584 catalytic residues [active] 1136179002585 effector binding site; other site 1136179002586 R2 peptide binding site; other site 1136179002587 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1136179002588 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 1136179002589 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1136179002590 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1136179002591 dimer interface [polypeptide binding]; other site 1136179002592 putative radical transfer pathway; other site 1136179002593 diiron center [ion binding]; other site 1136179002594 tyrosyl radical; other site 1136179002595 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1136179002596 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1136179002597 siderophore binding site; other site 1136179002598 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1136179002599 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1136179002600 D-pathway; other site 1136179002601 Putative ubiquinol binding site [chemical binding]; other site 1136179002602 Low-spin heme (heme b) binding site [chemical binding]; other site 1136179002603 Putative water exit pathway; other site 1136179002604 Binuclear center (heme o3/CuB) [ion binding]; other site 1136179002605 K-pathway; other site 1136179002606 Putative proton exit pathway; other site 1136179002607 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1136179002608 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179002609 Walker A/P-loop; other site 1136179002610 ATP binding site [chemical binding]; other site 1136179002611 Q-loop/lid; other site 1136179002612 ABC transporter signature motif; other site 1136179002613 Walker B; other site 1136179002614 D-loop; other site 1136179002615 H-loop/switch region; other site 1136179002616 enoyl-CoA hydratase; Provisional; Region: PRK07657 1136179002617 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179002618 substrate binding site [chemical binding]; other site 1136179002619 oxyanion hole (OAH) forming residues; other site 1136179002620 trimer interface [polypeptide binding]; other site 1136179002621 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1136179002622 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 1136179002623 S-adenosylmethionine binding site [chemical binding]; other site 1136179002624 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1136179002625 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 1136179002626 trimer interface [polypeptide binding]; other site 1136179002627 active site 1136179002628 substrate binding site [chemical binding]; other site 1136179002629 CoA binding site [chemical binding]; other site 1136179002630 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 1136179002631 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1136179002632 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1136179002633 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 1136179002634 S-adenosylmethionine binding site [chemical binding]; other site 1136179002635 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1136179002636 Ligand binding site [chemical binding]; other site 1136179002637 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1136179002638 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1136179002639 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1136179002640 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1136179002641 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1136179002642 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1136179002643 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1136179002644 putative acyl-acceptor binding pocket; other site 1136179002645 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 1136179002646 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1136179002647 Coenzyme A binding pocket [chemical binding]; other site 1136179002648 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1136179002649 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1136179002650 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179002651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179002652 active site 1136179002653 phosphorylation site [posttranslational modification] 1136179002654 intermolecular recognition site; other site 1136179002655 dimerization interface [polypeptide binding]; other site 1136179002656 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 1136179002657 DNA binding residues [nucleotide binding] 1136179002658 dimerization interface [polypeptide binding]; other site 1136179002659 6-phosphofructokinase; Provisional; Region: PRK03202 1136179002660 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1136179002661 active site 1136179002662 ADP/pyrophosphate binding site [chemical binding]; other site 1136179002663 dimerization interface [polypeptide binding]; other site 1136179002664 allosteric effector site; other site 1136179002665 fructose-1,6-bisphosphate binding site; other site 1136179002666 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1136179002667 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1136179002668 GatB domain; Region: GatB_Yqey; smart00845 1136179002669 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1136179002670 D-arabinose dehydrogenase; Region: arabinose_DH_like; cd05284 1136179002671 NAD binding site [chemical binding]; other site 1136179002672 substrate binding site [chemical binding]; other site 1136179002673 catalytic Zn binding site [ion binding]; other site 1136179002674 structural Zn binding site [ion binding]; other site 1136179002675 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1136179002676 Predicted membrane protein [Function unknown]; Region: COG2259 1136179002677 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1136179002678 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1136179002679 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1136179002680 putative valine binding site [chemical binding]; other site 1136179002681 dimer interface [polypeptide binding]; other site 1136179002682 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1136179002683 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1136179002684 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1136179002685 ligand binding site [chemical binding]; other site 1136179002686 NAD binding site [chemical binding]; other site 1136179002687 dimerization interface [polypeptide binding]; other site 1136179002688 catalytic site [active] 1136179002689 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1136179002690 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1136179002691 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1136179002692 active site 1136179002693 HIGH motif; other site 1136179002694 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1136179002695 active site 1136179002696 KMSKS motif; other site 1136179002697 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 1136179002698 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 1136179002699 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1136179002700 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1136179002701 Bacterial transcriptional regulator; Region: IclR; pfam01614 1136179002702 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1136179002703 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 1136179002704 substrate binding site [chemical binding]; other site 1136179002705 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 1136179002706 IHF - DNA interface [nucleotide binding]; other site 1136179002707 IHF dimer interface [polypeptide binding]; other site 1136179002708 polyphosphate kinase; Provisional; Region: PRK05443 1136179002709 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1136179002710 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1136179002711 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1136179002712 putative domain interface [polypeptide binding]; other site 1136179002713 putative active site [active] 1136179002714 catalytic site [active] 1136179002715 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1136179002716 putative domain interface [polypeptide binding]; other site 1136179002717 putative active site [active] 1136179002718 catalytic site [active] 1136179002719 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1136179002720 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1136179002721 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1136179002722 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1136179002723 ligand binding site [chemical binding]; other site 1136179002724 active site 1136179002725 UGI interface [polypeptide binding]; other site 1136179002726 catalytic site [active] 1136179002727 enoyl-CoA hydratase; Provisional; Region: PRK06688 1136179002728 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179002729 substrate binding site [chemical binding]; other site 1136179002730 oxyanion hole (OAH) forming residues; other site 1136179002731 trimer interface [polypeptide binding]; other site 1136179002732 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1136179002733 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 1136179002734 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 1136179002735 S-adenosylmethionine binding site [chemical binding]; other site 1136179002736 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1136179002737 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1136179002738 active site 1136179002739 (T/H)XGH motif; other site 1136179002740 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1136179002741 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1136179002742 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1136179002743 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 1136179002744 ribonuclease III; Reviewed; Region: rnc; PRK00102 1136179002745 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 1136179002746 dimerization interface [polypeptide binding]; other site 1136179002747 active site 1136179002748 metal binding site [ion binding]; metal-binding site 1136179002749 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 1136179002750 dsRNA binding site [nucleotide binding]; other site 1136179002751 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1136179002752 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1136179002753 DNA binding site [nucleotide binding] 1136179002754 catalytic residue [active] 1136179002755 H2TH interface [polypeptide binding]; other site 1136179002756 putative catalytic residues [active] 1136179002757 turnover-facilitating residue; other site 1136179002758 intercalation triad [nucleotide binding]; other site 1136179002759 8OG recognition residue [nucleotide binding]; other site 1136179002760 putative reading head residues; other site 1136179002761 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1136179002762 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1136179002763 acylphosphatase; Provisional; Region: PRK14422 1136179002764 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1136179002765 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1136179002766 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1136179002767 signal recognition particle protein; Provisional; Region: PRK10867 1136179002768 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1136179002769 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 1136179002770 P loop; other site 1136179002771 GTP binding site [chemical binding]; other site 1136179002772 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1136179002773 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 1136179002774 hypothetical protein; Provisional; Region: PRK02821 1136179002775 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1136179002776 G-X-X-G motif; other site 1136179002777 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1136179002778 RibD C-terminal domain; Region: RibD_C; cl17279 1136179002779 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1136179002780 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1136179002781 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 1136179002782 active site 1136179002783 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1136179002784 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1136179002785 RNA/DNA hybrid binding site [nucleotide binding]; other site 1136179002786 active site 1136179002787 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 1136179002788 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1136179002789 DNA protecting protein DprA; Region: dprA; TIGR00732 1136179002790 Lsr2; Region: Lsr2; pfam11774 1136179002791 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1136179002792 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 1136179002793 rRNA interaction site [nucleotide binding]; other site 1136179002794 S8 interaction site; other site 1136179002795 putative laminin-1 binding site; other site 1136179002796 elongation factor Ts; Provisional; Region: tsf; PRK09377 1136179002797 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 1136179002798 Elongation factor TS; Region: EF_TS; pfam00889 1136179002799 Elongation factor TS; Region: EF_TS; pfam00889 1136179002800 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 1136179002801 putative nucleotide binding site [chemical binding]; other site 1136179002802 uridine monophosphate binding site [chemical binding]; other site 1136179002803 homohexameric interface [polypeptide binding]; other site 1136179002804 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1136179002805 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1136179002806 hinge region; other site 1136179002807 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1136179002808 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1136179002809 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 1136179002810 S-adenosylmethionine binding site [chemical binding]; other site 1136179002811 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 1136179002812 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 1136179002813 FeS/SAM binding site; other site 1136179002814 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 1136179002815 Predicted acetyltransferase [General function prediction only]; Region: COG3393 1136179002816 Domain of unknown function (DUF4081); Region: DUF4081; pfam13312 1136179002817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1136179002818 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179002819 dimer interface [polypeptide binding]; other site 1136179002820 conserved gate region; other site 1136179002821 ABC-ATPase subunit interface; other site 1136179002822 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 1136179002823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179002824 dimer interface [polypeptide binding]; other site 1136179002825 conserved gate region; other site 1136179002826 putative PBP binding loops; other site 1136179002827 ABC-ATPase subunit interface; other site 1136179002828 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1136179002829 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179002830 Walker A/P-loop; other site 1136179002831 ATP binding site [chemical binding]; other site 1136179002832 Q-loop/lid; other site 1136179002833 ABC transporter signature motif; other site 1136179002834 Walker B; other site 1136179002835 D-loop; other site 1136179002836 H-loop/switch region; other site 1136179002837 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 1136179002838 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 1136179002839 motif II; other site 1136179002840 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1136179002841 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179002842 DNA-binding site [nucleotide binding]; DNA binding site 1136179002843 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1136179002844 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1136179002845 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1136179002846 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1136179002847 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 1136179002848 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1136179002849 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1136179002850 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1136179002851 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1136179002852 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1136179002853 GAF domain; Region: GAF_2; pfam13185 1136179002854 ANTAR domain; Region: ANTAR; pfam03861 1136179002855 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179002856 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179002857 enoyl-CoA hydratase; Provisional; Region: PRK08260 1136179002858 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179002859 substrate binding site [chemical binding]; other site 1136179002860 oxyanion hole (OAH) forming residues; other site 1136179002861 trimer interface [polypeptide binding]; other site 1136179002862 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1136179002863 Phosphotransferase enzyme family; Region: APH; pfam01636 1136179002864 putative active site [active] 1136179002865 putative substrate binding site [chemical binding]; other site 1136179002866 ATP binding site [chemical binding]; other site 1136179002867 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1136179002868 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1136179002869 malate:quinone oxidoreductase; Validated; Region: PRK05257 1136179002870 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1136179002871 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1136179002872 Coenzyme A binding pocket [chemical binding]; other site 1136179002873 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1136179002874 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1136179002875 Walker A motif; other site 1136179002876 homodimer interface [polypeptide binding]; other site 1136179002877 ATP binding site [chemical binding]; other site 1136179002878 hydroxycobalamin binding site [chemical binding]; other site 1136179002879 Walker B motif; other site 1136179002880 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1136179002881 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1136179002882 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1136179002883 active site 1136179002884 SAM binding site [chemical binding]; other site 1136179002885 homodimer interface [polypeptide binding]; other site 1136179002886 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 1136179002887 FOG: CBS domain [General function prediction only]; Region: COG0517 1136179002888 hypothetical protein; Validated; Region: PRK02101 1136179002889 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179002890 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1136179002891 active site 1136179002892 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 1136179002893 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1136179002894 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1136179002895 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 1136179002896 putative substrate translocation pore; other site 1136179002897 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1136179002898 dinuclear metal binding motif [ion binding]; other site 1136179002899 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1136179002900 NusA N-terminal domain; Region: NusA_N; pfam08529 1136179002901 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 1136179002902 RNA binding site [nucleotide binding]; other site 1136179002903 homodimer interface [polypeptide binding]; other site 1136179002904 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 1136179002905 G-X-X-G motif; other site 1136179002906 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 1136179002907 G-X-X-G motif; other site 1136179002908 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1136179002909 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1136179002910 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1136179002911 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1136179002912 G1 box; other site 1136179002913 putative GEF interaction site [polypeptide binding]; other site 1136179002914 GTP/Mg2+ binding site [chemical binding]; other site 1136179002915 Switch I region; other site 1136179002916 G2 box; other site 1136179002917 G3 box; other site 1136179002918 Switch II region; other site 1136179002919 G4 box; other site 1136179002920 G5 box; other site 1136179002921 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 1136179002922 Translation-initiation factor 2; Region: IF-2; pfam11987 1136179002923 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 1136179002924 Protein of unknown function (DUF503); Region: DUF503; cl00669 1136179002925 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1136179002926 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1136179002927 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1136179002928 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 1136179002929 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1136179002930 RNA binding site [nucleotide binding]; other site 1136179002931 active site 1136179002932 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 1136179002933 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1136179002934 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1136179002935 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1136179002936 FeoA domain; Region: FeoA; pfam04023 1136179002937 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1136179002938 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1136179002939 active site 1136179002940 Riboflavin kinase; Region: Flavokinase; smart00904 1136179002941 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 1136179002942 16S/18S rRNA binding site [nucleotide binding]; other site 1136179002943 S13e-L30e interaction site [polypeptide binding]; other site 1136179002944 25S rRNA binding site [nucleotide binding]; other site 1136179002945 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1136179002946 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1136179002947 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 1136179002948 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of...; Region: H2MP_like-1; cd06068 1136179002949 nickel binding site [ion binding]; other site 1136179002950 HupF/HypC family; Region: HupF_HypC; pfam01455 1136179002951 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1136179002952 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179002953 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179002954 Cobalt transport protein; Region: CbiQ; cl00463 1136179002955 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1136179002956 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1136179002957 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1136179002958 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1136179002959 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1136179002960 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1136179002961 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 1136179002962 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 1136179002963 intersubunit interface [polypeptide binding]; other site 1136179002964 enterobactin exporter EntS; Provisional; Region: PRK10489 1136179002965 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 1136179002966 putative substrate translocation pore; other site 1136179002967 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1136179002968 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1136179002969 Walker A/P-loop; other site 1136179002970 ATP binding site [chemical binding]; other site 1136179002971 Q-loop/lid; other site 1136179002972 ABC transporter signature motif; other site 1136179002973 Walker B; other site 1136179002974 D-loop; other site 1136179002975 H-loop/switch region; other site 1136179002976 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1136179002977 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1136179002978 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1136179002979 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 1136179002980 SLBB domain; Region: SLBB; pfam10531 1136179002981 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1136179002982 NADH dehydrogenase subunit C; Provisional; Region: PRK07785 1136179002983 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1136179002984 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1136179002985 NADH dehydrogenase subunit A; Validated; Region: PRK07928 1136179002986 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179002987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179002988 active site 1136179002989 phosphorylation site [posttranslational modification] 1136179002990 intermolecular recognition site; other site 1136179002991 dimerization interface [polypeptide binding]; other site 1136179002992 HicB family; Region: HicB; pfam05534 1136179002993 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1136179002994 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1136179002995 dimer interface [polypeptide binding]; other site 1136179002996 active site 1136179002997 catalytic residue [active] 1136179002998 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1136179002999 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1136179003000 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1136179003001 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1136179003002 YCII-related domain; Region: YCII; cl00999 1136179003003 Competence-damaged protein; Region: CinA; pfam02464 1136179003004 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 1136179003005 non-specific DNA binding site [nucleotide binding]; other site 1136179003006 salt bridge; other site 1136179003007 sequence-specific DNA binding site [nucleotide binding]; other site 1136179003008 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1136179003009 BioY family; Region: BioY; pfam02632 1136179003010 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1136179003011 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 1136179003012 recombinase A; Provisional; Region: recA; PRK09354 1136179003013 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 1136179003014 hexamer interface [polypeptide binding]; other site 1136179003015 Walker A motif; other site 1136179003016 ATP binding site [chemical binding]; other site 1136179003017 Walker B motif; other site 1136179003018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179003019 dimer interface [polypeptide binding]; other site 1136179003020 conserved gate region; other site 1136179003021 putative PBP binding loops; other site 1136179003022 ABC-ATPase subunit interface; other site 1136179003023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179003024 dimer interface [polypeptide binding]; other site 1136179003025 conserved gate region; other site 1136179003026 putative PBP binding loops; other site 1136179003027 ABC-ATPase subunit interface; other site 1136179003028 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1136179003029 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 1136179003030 substrate binding pocket [chemical binding]; other site 1136179003031 membrane-bound complex binding site; other site 1136179003032 hinge residues; other site 1136179003033 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1136179003034 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1136179003035 Walker A/P-loop; other site 1136179003036 ATP binding site [chemical binding]; other site 1136179003037 Q-loop/lid; other site 1136179003038 ABC transporter signature motif; other site 1136179003039 Walker B; other site 1136179003040 D-loop; other site 1136179003041 H-loop/switch region; other site 1136179003042 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 1136179003043 active site 1136179003044 catalytic site [active] 1136179003045 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 1136179003046 dimerization domain swap beta strand [polypeptide binding]; other site 1136179003047 regulatory protein interface [polypeptide binding]; other site 1136179003048 active site 1136179003049 regulatory phosphorylation site [posttranslational modification]; other site 1136179003050 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1136179003051 LexA repressor; Validated; Region: PRK00215 1136179003052 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1136179003053 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 1136179003054 Catalytic site [active] 1136179003055 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1136179003056 ATP cone domain; Region: ATP-cone; pfam03477 1136179003057 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 1136179003058 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 1136179003059 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 1136179003060 inhibitor-cofactor binding pocket; inhibition site 1136179003061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179003062 catalytic residue [active] 1136179003063 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1136179003064 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1136179003065 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1136179003066 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1136179003067 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1136179003068 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 1136179003069 dimer interface [polypeptide binding]; other site 1136179003070 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1136179003071 catalytic triad [active] 1136179003072 peroxidatic and resolving cysteines [active] 1136179003073 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 1136179003074 dimerization interface [polypeptide binding]; other site 1136179003075 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 1136179003076 ATP binding site [chemical binding]; other site 1136179003077 putative Mg++ binding site [ion binding]; other site 1136179003078 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 1136179003079 nucleotide binding region [chemical binding]; other site 1136179003080 ATP-binding site [chemical binding]; other site 1136179003081 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 1136179003082 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1136179003083 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1136179003084 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1136179003085 PAC2 family; Region: PAC2; pfam09754 1136179003086 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1136179003087 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1136179003088 NAD binding site [chemical binding]; other site 1136179003089 homodimer interface [polypeptide binding]; other site 1136179003090 active site 1136179003091 substrate binding site [chemical binding]; other site 1136179003092 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1136179003093 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1136179003094 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1136179003095 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 1136179003096 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 1136179003097 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1136179003098 active site 1136179003099 Zn binding site [ion binding]; other site 1136179003100 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 1136179003101 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1136179003102 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1136179003103 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1136179003104 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 1136179003105 DNA binding residues [nucleotide binding] 1136179003106 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1136179003107 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 1136179003108 S-adenosylmethionine binding site [chemical binding]; other site 1136179003109 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 1136179003110 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 1136179003111 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1136179003112 DNA-binding 11 kDa phosphoprotein; Region: Pox_F17; cl17330 1136179003113 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1136179003114 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 1136179003115 ATP binding site [chemical binding]; other site 1136179003116 putative Mg++ binding site [ion binding]; other site 1136179003117 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1136179003118 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1136179003119 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 1136179003120 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1136179003121 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1136179003122 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 1136179003123 DNA binding residues [nucleotide binding] 1136179003124 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1136179003125 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1136179003126 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1136179003127 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 1136179003128 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 1136179003129 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1136179003130 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1136179003131 generic binding surface II; other site 1136179003132 ssDNA binding site; other site 1136179003133 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 1136179003134 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1136179003135 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1136179003136 TrkA-N domain; Region: TrkA_N; pfam02254 1136179003137 TrkA-C domain; Region: TrkA_C; pfam02080 1136179003138 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1136179003139 TrkA-N domain; Region: TrkA_N; pfam02254 1136179003140 TrkA-C domain; Region: TrkA_C; pfam02080 1136179003141 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1136179003142 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 1136179003143 putative Zn2+ binding site [ion binding]; other site 1136179003144 putative DNA binding site [nucleotide binding]; other site 1136179003145 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1136179003146 glutaminase; Provisional; Region: PRK00971 1136179003147 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1136179003148 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1136179003149 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 1136179003150 ligand binding site [chemical binding]; other site 1136179003151 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1136179003152 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 1136179003153 TPP-binding site; other site 1136179003154 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 1136179003155 PYR/PP interface [polypeptide binding]; other site 1136179003156 dimer interface [polypeptide binding]; other site 1136179003157 TPP binding site [chemical binding]; other site 1136179003158 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1136179003159 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1136179003160 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 1136179003161 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 1136179003162 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1136179003163 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 1136179003164 dimer interface [polypeptide binding]; other site 1136179003165 active site 1136179003166 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1136179003167 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1136179003168 catalytic site [active] 1136179003169 putative active site [active] 1136179003170 putative substrate binding site [chemical binding]; other site 1136179003171 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1136179003172 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 1136179003173 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 1136179003174 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 1136179003175 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 1136179003176 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1136179003177 SelR domain; Region: SelR; pfam01641 1136179003178 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 1136179003179 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1136179003180 Walker A motif; other site 1136179003181 ATP binding site [chemical binding]; other site 1136179003182 Walker B motif; other site 1136179003183 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1136179003184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1136179003185 Coenzyme A binding pocket [chemical binding]; other site 1136179003186 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 1136179003187 putative substrate translocation pore; other site 1136179003188 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1136179003189 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1136179003190 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1136179003191 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 1136179003192 active site 1136179003193 dimer interface [polypeptide binding]; other site 1136179003194 motif 1; other site 1136179003195 motif 2; other site 1136179003196 motif 3; other site 1136179003197 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 1136179003198 anticodon binding site; other site 1136179003199 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 1136179003200 nucleotide binding site/active site [active] 1136179003201 HIT family signature motif; other site 1136179003202 catalytic residue [active] 1136179003203 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1136179003204 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1136179003205 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1136179003206 putative acyl-acceptor binding pocket; other site 1136179003207 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1136179003208 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1136179003209 active site 1136179003210 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1136179003211 catalytic triad [active] 1136179003212 dimer interface [polypeptide binding]; other site 1136179003213 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1136179003214 imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; Region: IMP_synth_hisH; TIGR01855 1136179003215 predicted active site [active] 1136179003216 catalytic triad [active] 1136179003217 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 1136179003218 Predicted transcriptional regulators [Transcription]; Region: COG1725 1136179003219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179003220 DNA-binding site [nucleotide binding]; DNA binding site 1136179003221 hypothetical protein; Validated; Region: PRK00110 1136179003222 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1136179003223 RuvA N terminal domain; Region: RuvA_N; pfam01330 1136179003224 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1136179003225 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1136179003226 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 1136179003227 Walker A motif; other site 1136179003228 ATP binding site [chemical binding]; other site 1136179003229 Walker B motif; other site 1136179003230 arginine finger; other site 1136179003231 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1136179003232 Preprotein translocase subunit; Region: YajC; cl00806 1136179003233 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1136179003234 active site 1136179003235 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1136179003236 malate dehydrogenase; Provisional; Region: PRK05442 1136179003237 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1136179003238 NAD(P) binding site [chemical binding]; other site 1136179003239 dimer interface [polypeptide binding]; other site 1136179003240 malate binding site [chemical binding]; other site 1136179003241 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1136179003242 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1136179003243 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1136179003244 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 1136179003245 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 1136179003246 FOG: CBS domain [General function prediction only]; Region: COG0517 1136179003247 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 1136179003248 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1136179003249 metal binding triad; other site 1136179003250 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 1136179003251 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 1136179003252 homotrimer interaction site [polypeptide binding]; other site 1136179003253 putative active site [active] 1136179003254 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1136179003255 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 1136179003256 FeS/SAM binding site; other site 1136179003257 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1136179003258 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1136179003259 DNA binding site [nucleotide binding] 1136179003260 domain linker motif; other site 1136179003261 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1136179003262 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 1136179003263 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1136179003264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1136179003265 Domain of unknown function (DUF389); Region: DUF389; cl00781 1136179003266 Domain of unknown function (DUF389); Region: DUF389; cl00781 1136179003267 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1136179003268 substrate binding site [chemical binding]; other site 1136179003269 SnoaL-like domain; Region: SnoaL_2; pfam12680 1136179003270 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1136179003271 YceG-like family; Region: YceG; pfam02618 1136179003272 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 1136179003273 dimerization interface [polypeptide binding]; other site 1136179003274 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 1136179003275 substrate binding sites [chemical binding]; other site 1136179003276 shikimate kinase; Reviewed; Region: aroK; PRK00131 1136179003277 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 1136179003278 ADP binding site [chemical binding]; other site 1136179003279 magnesium binding site [ion binding]; other site 1136179003280 putative shikimate binding site; other site 1136179003281 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1136179003282 active site 1136179003283 dimer interface [polypeptide binding]; other site 1136179003284 metal binding site [ion binding]; metal-binding site 1136179003285 elongation factor P; Validated; Region: PRK00529 1136179003286 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1136179003287 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 1136179003288 RNA binding site [nucleotide binding]; other site 1136179003289 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 1136179003290 RNA binding site [nucleotide binding]; other site 1136179003291 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1136179003292 putative RNA binding site [nucleotide binding]; other site 1136179003293 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1136179003294 bifunctional pyrimidine regulatory protein PyrR uracil phosphoribosyltransferase; Provisional; Region: PRK05205 1136179003295 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1136179003296 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1136179003297 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1136179003298 dihydroorotase; Validated; Region: pyrC; PRK09357 1136179003299 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 1136179003300 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 1136179003301 active site 1136179003302 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 1136179003303 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1136179003304 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1136179003305 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1136179003306 catalytic site [active] 1136179003307 subunit interface [polypeptide binding]; other site 1136179003308 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1136179003309 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1136179003310 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1136179003311 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1136179003312 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1136179003313 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1136179003314 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 1136179003315 IMP binding site; other site 1136179003316 dimer interface [polypeptide binding]; other site 1136179003317 interdomain contacts; other site 1136179003318 partial ornithine binding site; other site 1136179003319 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1136179003320 active site 1136179003321 dimer interface [polypeptide binding]; other site 1136179003322 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1136179003323 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 1136179003324 catalytic site [active] 1136179003325 G-X2-G-X-G-K; other site 1136179003326 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1136179003327 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1136179003328 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1136179003329 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1136179003330 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1136179003331 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1136179003332 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1136179003333 putative active site [active] 1136179003334 substrate binding site [chemical binding]; other site 1136179003335 putative cosubstrate binding site; other site 1136179003336 catalytic site [active] 1136179003337 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1136179003338 substrate binding site [chemical binding]; other site 1136179003339 Protein of unknown function (DUF419); Region: DUF419; cl15265 1136179003340 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1136179003341 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 1136179003342 catalytic motif [active] 1136179003343 Zn binding site [ion binding]; other site 1136179003344 RibD C-terminal domain; Region: RibD_C; pfam01872 1136179003345 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1136179003346 Lumazine binding domain; Region: Lum_binding; pfam00677 1136179003347 Lumazine binding domain; Region: Lum_binding; pfam00677 1136179003348 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1136179003349 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1136179003350 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 1136179003351 dimerization interface [polypeptide binding]; other site 1136179003352 active site 1136179003353 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 1136179003354 homopentamer interface [polypeptide binding]; other site 1136179003355 active site 1136179003356 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 1136179003357 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1136179003358 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1136179003359 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1136179003360 phosphate binding site [ion binding]; other site 1136179003361 putative substrate binding pocket [chemical binding]; other site 1136179003362 dimer interface [polypeptide binding]; other site 1136179003363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1136179003364 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1136179003365 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1136179003366 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1136179003367 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1136179003368 Phosphoglycerate kinase; Region: PGK; pfam00162 1136179003369 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 1136179003370 substrate binding site [chemical binding]; other site 1136179003371 hinge regions; other site 1136179003372 ADP binding site [chemical binding]; other site 1136179003373 catalytic site [active] 1136179003374 triosephosphate isomerase; Provisional; Region: PRK14567 1136179003375 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 1136179003376 substrate binding site [chemical binding]; other site 1136179003377 dimer interface [polypeptide binding]; other site 1136179003378 catalytic triad [active] 1136179003379 Protein of unknown function (DUF419); Region: DUF419; cl15265 1136179003380 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 1136179003381 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; pfam10128 1136179003382 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1136179003383 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 1136179003384 TPP-binding site [chemical binding]; other site 1136179003385 dimer interface [polypeptide binding]; other site 1136179003386 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 1136179003387 PYR/PP interface [polypeptide binding]; other site 1136179003388 dimer interface [polypeptide binding]; other site 1136179003389 TPP binding site [chemical binding]; other site 1136179003390 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1136179003391 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1136179003392 UbiA prenyltransferase family; Region: UbiA; pfam01040 1136179003393 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1136179003394 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1136179003395 NADP binding site [chemical binding]; other site 1136179003396 dimer interface [polypeptide binding]; other site 1136179003397 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1136179003398 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1136179003399 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1136179003400 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1136179003401 Walker A/P-loop; other site 1136179003402 ATP binding site [chemical binding]; other site 1136179003403 Q-loop/lid; other site 1136179003404 ABC transporter signature motif; other site 1136179003405 Walker B; other site 1136179003406 D-loop; other site 1136179003407 H-loop/switch region; other site 1136179003408 Predicted transcriptional regulator [Transcription]; Region: COG2345 1136179003409 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 1136179003410 putative DNA binding site [nucleotide binding]; other site 1136179003411 putative Zn2+ binding site [ion binding]; other site 1136179003412 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1136179003413 FeS assembly protein SufB; Region: sufB; TIGR01980 1136179003414 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1136179003415 FeS assembly protein SufD; Region: sufD; TIGR01981 1136179003416 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1136179003417 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1136179003418 Walker A/P-loop; other site 1136179003419 ATP binding site [chemical binding]; other site 1136179003420 Q-loop/lid; other site 1136179003421 ABC transporter signature motif; other site 1136179003422 Walker B; other site 1136179003423 D-loop; other site 1136179003424 H-loop/switch region; other site 1136179003425 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1136179003426 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1136179003427 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1136179003428 catalytic residue [active] 1136179003429 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1136179003430 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1136179003431 trimerization site [polypeptide binding]; other site 1136179003432 active site 1136179003433 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1136179003434 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1136179003435 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 1136179003436 putative DNA binding site [nucleotide binding]; other site 1136179003437 putative homodimer interface [polypeptide binding]; other site 1136179003438 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1136179003439 classical (c) SDRs; Region: SDR_c; cd05233 1136179003440 NAD(P) binding site [chemical binding]; other site 1136179003441 active site 1136179003442 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1136179003443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179003444 Walker A/P-loop; other site 1136179003445 ATP binding site [chemical binding]; other site 1136179003446 Q-loop/lid; other site 1136179003447 ABC transporter signature motif; other site 1136179003448 Walker B; other site 1136179003449 D-loop; other site 1136179003450 H-loop/switch region; other site 1136179003451 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1136179003452 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179003453 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179003454 aconitate hydratase; Validated; Region: PRK09277 1136179003455 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1136179003456 substrate binding site [chemical binding]; other site 1136179003457 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1136179003458 ligand binding site [chemical binding]; other site 1136179003459 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1136179003460 substrate binding site [chemical binding]; other site 1136179003461 hypothetical protein; Provisional; Region: PRK13685 1136179003462 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1136179003463 metal ion-dependent adhesion site (MIDAS); other site 1136179003464 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1136179003465 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1136179003466 NAD(P) binding site [chemical binding]; other site 1136179003467 homotetramer interface [polypeptide binding]; other site 1136179003468 homodimer interface [polypeptide binding]; other site 1136179003469 active site 1136179003470 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07889 1136179003471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179003472 NAD(P) binding site [chemical binding]; other site 1136179003473 active site 1136179003474 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1136179003475 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 1136179003476 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1136179003477 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 1136179003478 membrane ATPase/protein kinase; Provisional; Region: PRK09435 1136179003479 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1136179003480 Walker A; other site 1136179003481 Predicted permeases [General function prediction only]; Region: COG0730 1136179003482 OsmC-like protein; Region: OsmC; cl00767 1136179003483 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1136179003484 Domain of unknown function DUF21; Region: DUF21; pfam01595 1136179003485 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 1136179003486 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1136179003487 Domain of unknown function DUF21; Region: DUF21; pfam01595 1136179003488 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 1136179003489 Transporter associated domain; Region: CorC_HlyC; smart01091 1136179003490 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1136179003491 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1136179003492 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1136179003493 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1136179003494 Predicted transcriptional regulator [Transcription]; Region: COG3682 1136179003495 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1136179003496 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1136179003497 Walker A/P-loop; other site 1136179003498 ATP binding site [chemical binding]; other site 1136179003499 Q-loop/lid; other site 1136179003500 ABC transporter signature motif; other site 1136179003501 Walker B; other site 1136179003502 D-loop; other site 1136179003503 H-loop/switch region; other site 1136179003504 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 1136179003505 ABC-ATPase subunit interface; other site 1136179003506 dimer interface [polypeptide binding]; other site 1136179003507 putative PBP binding regions; other site 1136179003508 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1136179003509 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1136179003510 Secretory lipase; Region: LIP; pfam03583 1136179003511 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 1136179003512 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 1136179003513 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179003514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179003515 active site 1136179003516 phosphorylation site [posttranslational modification] 1136179003517 intermolecular recognition site; other site 1136179003518 dimerization interface [polypeptide binding]; other site 1136179003519 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 1136179003520 DNA binding residues [nucleotide binding] 1136179003521 dimerization interface [polypeptide binding]; other site 1136179003522 hypothetical protein; Provisional; Region: PRK10621 1136179003523 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1136179003524 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1136179003525 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1136179003526 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1136179003527 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1136179003528 active site 1136179003529 SAM binding site [chemical binding]; other site 1136179003530 homodimer interface [polypeptide binding]; other site 1136179003531 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 1136179003532 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1136179003533 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 1136179003534 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 1136179003535 Predicted transcriptional regulator [Transcription]; Region: COG2378 1136179003536 WYL domain; Region: WYL; pfam13280 1136179003537 Predicted transcriptional regulator [Transcription]; Region: COG2378 1136179003538 WYL domain; Region: WYL; pfam13280 1136179003539 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 1136179003540 Diacylglycerol kinase catalytic domain (presumed); Region: DAGKc; smart00046 1136179003541 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1136179003542 proteasome, alpha subunit, bacterial type; Region: 20S_bact_alpha; TIGR03691 1136179003543 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 1136179003544 active site 1136179003545 proteasome, beta subunit, bacterial type; Region: 20S_bact_beta; TIGR03690 1136179003546 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 1136179003547 active site 1136179003548 Pup-like protein; Region: Pup; cl05289 1136179003549 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 1136179003550 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 1136179003551 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 1136179003552 nudix motif; other site 1136179003553 Predicted coiled-coil domain-containing protein; Region: KLRAQ; pfam10205 1136179003554 proteasome ATPase; Region: pup_AAA; TIGR03689 1136179003555 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 1136179003556 Walker A motif; other site 1136179003557 ATP binding site [chemical binding]; other site 1136179003558 Walker B motif; other site 1136179003559 arginine finger; other site 1136179003560 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 1136179003561 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 1136179003562 S-adenosylmethionine binding site [chemical binding]; other site 1136179003563 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1136179003564 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1136179003565 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1136179003566 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1136179003567 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 1136179003568 homodimer interface [polypeptide binding]; other site 1136179003569 putative metal binding site [ion binding]; other site 1136179003570 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1136179003571 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1136179003572 active site 1136179003573 hypothetical protein; Validated; Region: PRK01415 1136179003574 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1136179003575 active site residue [active] 1136179003576 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1136179003577 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 1136179003578 motif II; other site 1136179003579 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1136179003580 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 1136179003581 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1136179003582 substrate binding pocket [chemical binding]; other site 1136179003583 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1136179003584 B12 binding site [chemical binding]; other site 1136179003585 cobalt ligand [ion binding]; other site 1136179003586 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1136179003587 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 1136179003588 TIGR02677 family protein; Region: TIGR02677 1136179003589 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1136179003590 MarR family; Region: MarR_2; pfam12802 1136179003591 conserved hypothetical protein; Region: TIGR03843 1136179003592 conserved hypothetical protein; Region: TIGR03847 1136179003593 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 1136179003594 catalytic core [active] 1136179003595 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 1136179003596 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 1136179003597 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1136179003598 active site 1136179003599 catalytic tetrad [active] 1136179003600 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1136179003601 heme binding pocket [chemical binding]; other site 1136179003602 heme ligand [chemical binding]; other site 1136179003603 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1136179003604 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1136179003605 substrate binding site [chemical binding]; other site 1136179003606 hypothetical protein; Provisional; Region: PRK07906 1136179003607 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 1136179003608 putative metal binding site [ion binding]; other site 1136179003609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179003610 NAD(P) binding site [chemical binding]; other site 1136179003611 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1136179003612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179003613 active site 1136179003614 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 1136179003615 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1136179003616 active site 1136179003617 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1136179003618 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1136179003619 putative active site [active] 1136179003620 putative metal binding site [ion binding]; other site 1136179003621 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1136179003622 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1136179003623 DNA binding residues [nucleotide binding] 1136179003624 putative dimer interface [polypeptide binding]; other site 1136179003625 Bifunctional nuclease; Region: DNase-RNase; pfam02577 1136179003626 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1136179003627 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1136179003628 DNA binding residues [nucleotide binding] 1136179003629 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1136179003630 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 1136179003631 phosphopeptide binding site; other site 1136179003632 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 1136179003633 Putative esterase; Region: Esterase; pfam00756 1136179003634 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 1136179003635 substrate binding site [chemical binding]; other site 1136179003636 dimer interface [polypeptide binding]; other site 1136179003637 ATP binding site [chemical binding]; other site 1136179003638 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 1136179003639 active site 1136179003640 putative catalytic site [active] 1136179003641 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1136179003642 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1136179003643 Walker A/P-loop; other site 1136179003644 ATP binding site [chemical binding]; other site 1136179003645 Q-loop/lid; other site 1136179003646 ABC transporter signature motif; other site 1136179003647 Walker B; other site 1136179003648 D-loop; other site 1136179003649 H-loop/switch region; other site 1136179003650 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1136179003651 GTP-binding protein Der; Reviewed; Region: PRK03003 1136179003652 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1136179003653 GTP/Mg2+ binding site [chemical binding]; other site 1136179003654 G5 box; other site 1136179003655 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1136179003656 G1 box; other site 1136179003657 G1 box; other site 1136179003658 GTP/Mg2+ binding site [chemical binding]; other site 1136179003659 Switch I region; other site 1136179003660 Switch I region; other site 1136179003661 G2 box; other site 1136179003662 G2 box; other site 1136179003663 Switch II region; other site 1136179003664 G3 box; other site 1136179003665 G4 box; other site 1136179003666 G5 box; other site 1136179003667 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1136179003668 G1 box; other site 1136179003669 GTP/Mg2+ binding site [chemical binding]; other site 1136179003670 Switch I region; other site 1136179003671 G2 box; other site 1136179003672 G3 box; other site 1136179003673 Switch II region; other site 1136179003674 G4 box; other site 1136179003675 G5 box; other site 1136179003676 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1136179003677 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 1136179003678 RNA binding surface [nucleotide binding]; other site 1136179003679 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1136179003680 active site 1136179003681 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1136179003682 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 1136179003683 active site 1136179003684 DNA binding site [nucleotide binding] 1136179003685 Int/Topo IB signature motif; other site 1136179003686 CTP synthetase; Validated; Region: pyrG; PRK05380 1136179003687 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 1136179003688 Catalytic site [active] 1136179003689 active site 1136179003690 UTP binding site [chemical binding]; other site 1136179003691 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1136179003692 active site 1136179003693 putative oxyanion hole; other site 1136179003694 catalytic triad [active] 1136179003695 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 1136179003696 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1136179003697 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1136179003698 Walker A/P-loop; other site 1136179003699 ATP binding site [chemical binding]; other site 1136179003700 Q-loop/lid; other site 1136179003701 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1136179003702 ABC transporter signature motif; other site 1136179003703 Walker B; other site 1136179003704 D-loop; other site 1136179003705 H-loop/switch region; other site 1136179003706 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 1136179003707 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1136179003708 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1136179003709 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1136179003710 active site 1136179003711 HIGH motif; other site 1136179003712 dimer interface [polypeptide binding]; other site 1136179003713 KMSKS motif; other site 1136179003714 S4 RNA-binding domain; Region: S4; smart00363 1136179003715 RNA binding surface [nucleotide binding]; other site 1136179003716 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1136179003717 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1136179003718 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179003719 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179003720 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1136179003721 acyl-CoA synthetase; Validated; Region: PRK07868 1136179003722 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179003723 acyl-activating enzyme (AAE) consensus motif; other site 1136179003724 AMP binding site [chemical binding]; other site 1136179003725 active site 1136179003726 CoA binding site [chemical binding]; other site 1136179003727 argininosuccinate lyase; Provisional; Region: PRK00855 1136179003728 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1136179003729 active sites [active] 1136179003730 tetramer interface [polypeptide binding]; other site 1136179003731 argininosuccinate synthase; Provisional; Region: PRK13820 1136179003732 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 1136179003733 ANP binding site [chemical binding]; other site 1136179003734 Substrate Binding Site II [chemical binding]; other site 1136179003735 Substrate Binding Site I [chemical binding]; other site 1136179003736 arginine repressor; Provisional; Region: PRK03341 1136179003737 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1136179003738 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1136179003739 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1136179003740 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1136179003741 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1136179003742 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 1136179003743 feedback inhibition sensing region; other site 1136179003744 homohexameric interface [polypeptide binding]; other site 1136179003745 nucleotide binding site [chemical binding]; other site 1136179003746 N-acetyl-L-glutamate binding site [chemical binding]; other site 1136179003747 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1136179003748 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1136179003749 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1136179003750 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 1136179003751 putative tRNA-binding site [nucleotide binding]; other site 1136179003752 B3/4 domain; Region: B3_4; pfam03483 1136179003753 tRNA synthetase B5 domain; Region: B5; smart00874 1136179003754 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 1136179003755 dimer interface [polypeptide binding]; other site 1136179003756 motif 1; other site 1136179003757 motif 3; other site 1136179003758 motif 2; other site 1136179003759 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1136179003760 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1136179003761 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1136179003762 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 1136179003763 dimer interface [polypeptide binding]; other site 1136179003764 motif 1; other site 1136179003765 active site 1136179003766 motif 2; other site 1136179003767 motif 3; other site 1136179003768 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1136179003769 23S rRNA binding site [nucleotide binding]; other site 1136179003770 L21 binding site [polypeptide binding]; other site 1136179003771 L13 binding site [polypeptide binding]; other site 1136179003772 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1136179003773 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1136179003774 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1136179003775 Predicted membrane protein [Function unknown]; Region: COG2259 1136179003776 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 1136179003777 Ligand Binding Site [chemical binding]; other site 1136179003778 excinuclease ABC subunit B; Provisional; Region: PRK05298 1136179003779 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 1136179003780 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 1136179003781 nucleotide binding region [chemical binding]; other site 1136179003782 ATP-binding site [chemical binding]; other site 1136179003783 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1136179003784 UvrB/uvrC motif; Region: UVR; pfam02151 1136179003785 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 1136179003786 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1136179003787 RNA binding site [nucleotide binding]; other site 1136179003788 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1136179003789 RNA binding site [nucleotide binding]; other site 1136179003790 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 1136179003791 RNA binding site [nucleotide binding]; other site 1136179003792 S1 RNA binding domain; Region: S1; pfam00575 1136179003793 RNA binding site [nucleotide binding]; other site 1136179003794 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 1136179003795 S-adenosylmethionine binding site [chemical binding]; other site 1136179003796 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1136179003797 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1136179003798 Walker A/P-loop; other site 1136179003799 ATP binding site [chemical binding]; other site 1136179003800 Q-loop/lid; other site 1136179003801 ABC transporter signature motif; other site 1136179003802 Walker B; other site 1136179003803 D-loop; other site 1136179003804 H-loop/switch region; other site 1136179003805 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1136179003806 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179003807 dimer interface [polypeptide binding]; other site 1136179003808 conserved gate region; other site 1136179003809 putative PBP binding loops; other site 1136179003810 ABC-ATPase subunit interface; other site 1136179003811 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1136179003812 tartrate dehydrogenase; Region: TTC; TIGR02089 1136179003813 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 1136179003814 catalytic residues [active] 1136179003815 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1136179003816 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 1136179003817 TM-ABC transporter signature motif; other site 1136179003818 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1136179003819 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1136179003820 Walker A/P-loop; other site 1136179003821 ATP binding site [chemical binding]; other site 1136179003822 Q-loop/lid; other site 1136179003823 ABC transporter signature motif; other site 1136179003824 Walker B; other site 1136179003825 D-loop; other site 1136179003826 H-loop/switch region; other site 1136179003827 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1136179003828 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1136179003829 Walker A/P-loop; other site 1136179003830 ATP binding site [chemical binding]; other site 1136179003831 Q-loop/lid; other site 1136179003832 ABC transporter signature motif; other site 1136179003833 Walker B; other site 1136179003834 D-loop; other site 1136179003835 H-loop/switch region; other site 1136179003836 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1136179003837 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1136179003838 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1136179003839 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179003840 active site 1136179003841 phosphorylation site [posttranslational modification] 1136179003842 intermolecular recognition site; other site 1136179003843 dimerization interface [polypeptide binding]; other site 1136179003844 ANTAR domain; Region: ANTAR; pfam03861 1136179003845 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 1136179003846 putative hydrophobic ligand binding site [chemical binding]; other site 1136179003847 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1136179003848 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1136179003849 active site 1136179003850 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1136179003851 catalytic triad [active] 1136179003852 dimer interface [polypeptide binding]; other site 1136179003853 TM2 domain; Region: TM2; pfam05154 1136179003854 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 1136179003855 substrate binding site [chemical binding]; other site 1136179003856 active site 1136179003857 catalytic residues [active] 1136179003858 heterodimer interface [polypeptide binding]; other site 1136179003859 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1136179003860 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 1136179003861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179003862 catalytic residue [active] 1136179003863 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 1136179003864 active site 1136179003865 ribulose/triose binding site [chemical binding]; other site 1136179003866 phosphate binding site [ion binding]; other site 1136179003867 substrate (anthranilate) binding pocket [chemical binding]; other site 1136179003868 product (indole) binding pocket [chemical binding]; other site 1136179003869 anthranilate synthase component I; Provisional; Region: PRK13571 1136179003870 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1136179003871 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1136179003872 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1136179003873 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1136179003874 catalytic triad [active] 1136179003875 mce related protein; Region: MCE; pfam02470 1136179003876 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1136179003877 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1136179003878 Permease; Region: Permease; pfam02405 1136179003879 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1136179003880 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 1136179003881 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1136179003882 Cytochrome P450; Region: p450; cl12078 1136179003883 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 1136179003884 classical (c) SDRs; Region: SDR_c; cd05233 1136179003885 NAD(P) binding site [chemical binding]; other site 1136179003886 active site 1136179003887 short chain dehydrogenase; Provisional; Region: PRK07774 1136179003888 classical (c) SDRs; Region: SDR_c; cd05233 1136179003889 NAD(P) binding site [chemical binding]; other site 1136179003890 active site 1136179003891 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1136179003892 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1136179003893 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 1136179003894 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1136179003895 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 1136179003896 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1136179003897 substrate binding site [chemical binding]; other site 1136179003898 glutamase interaction surface [polypeptide binding]; other site 1136179003899 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1136179003900 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1136179003901 putative active site [active] 1136179003902 oxyanion strand; other site 1136179003903 catalytic triad [active] 1136179003904 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1136179003905 putative active site pocket [active] 1136179003906 4-fold oligomerization interface [polypeptide binding]; other site 1136179003907 metal binding residues [ion binding]; metal-binding site 1136179003908 3-fold/trimer interface [polypeptide binding]; other site 1136179003909 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 1136179003910 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 1136179003911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179003912 homodimer interface [polypeptide binding]; other site 1136179003913 catalytic residue [active] 1136179003914 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 1136179003915 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 1136179003916 NAD binding site [chemical binding]; other site 1136179003917 dimerization interface [polypeptide binding]; other site 1136179003918 product binding site; other site 1136179003919 substrate binding site [chemical binding]; other site 1136179003920 zinc binding site [ion binding]; other site 1136179003921 catalytic residues [active] 1136179003922 LysE type translocator; Region: LysE; cl00565 1136179003923 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1136179003924 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1136179003925 non-specific DNA interactions [nucleotide binding]; other site 1136179003926 DNA binding site [nucleotide binding] 1136179003927 sequence specific DNA binding site [nucleotide binding]; other site 1136179003928 putative cAMP binding site [chemical binding]; other site 1136179003929 quinolinate synthetase; Provisional; Region: PRK09375 1136179003930 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 1136179003931 nudix motif; other site 1136179003932 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1136179003933 biotin synthase; Validated; Region: PRK06256 1136179003934 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 1136179003935 FeS/SAM binding site; other site 1136179003936 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1136179003937 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1136179003938 active site 1136179003939 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1136179003940 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 1136179003941 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1136179003942 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1136179003943 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1136179003944 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1136179003945 catalytic residue [active] 1136179003946 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1136179003947 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 1136179003948 inhibitor-cofactor binding pocket; inhibition site 1136179003949 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179003950 catalytic residue [active] 1136179003951 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 1136179003952 classical (c) SDRs; Region: SDR_c; cd05233 1136179003953 NAD(P) binding site [chemical binding]; other site 1136179003954 active site 1136179003955 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1136179003956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179003957 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179003958 Domain of unknown function (DUF1918); Region: DUF1918; pfam08940 1136179003959 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179003960 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179003961 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1136179003962 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1136179003963 active site 1136179003964 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1136179003965 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 1136179003966 putative substrate translocation pore; other site 1136179003967 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1136179003968 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179003969 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1136179003970 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1136179003971 active site 1136179003972 PHP Thumb interface [polypeptide binding]; other site 1136179003973 metal binding site [ion binding]; metal-binding site 1136179003974 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 1136179003975 generic binding surface II; other site 1136179003976 generic binding surface I; other site 1136179003977 DNA polymerase IV; Provisional; Region: PRK03348 1136179003978 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1136179003979 active site 1136179003980 DNA binding site [nucleotide binding] 1136179003981 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1136179003982 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1136179003983 DivIVA domain; Region: DivI1A_domain; TIGR03544 1136179003984 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1136179003985 YGGT family; Region: YGGT; cl00508 1136179003986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1136179003987 cell division protein FtsZ; Validated; Region: PRK09330 1136179003988 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 1136179003989 nucleotide binding site [chemical binding]; other site 1136179003990 SulA interaction site; other site 1136179003991 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1136179003992 Cell division protein FtsQ; Region: FtsQ; pfam03799 1136179003993 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1136179003994 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1136179003995 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1136179003996 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1136179003997 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1136179003998 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 1136179003999 active site 1136179004000 homodimer interface [polypeptide binding]; other site 1136179004001 cell division protein FtsW; Region: ftsW; TIGR02614 1136179004002 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 1136179004003 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 1136179004004 Mg++ binding site [ion binding]; other site 1136179004005 putative catalytic motif [active] 1136179004006 putative substrate binding site [chemical binding]; other site 1136179004007 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1136179004008 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1136179004009 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1136179004010 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1136179004011 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1136179004012 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1136179004013 cell division protein MraZ; Reviewed; Region: PRK00326 1136179004014 MraZ protein; Region: MraZ; pfam02381 1136179004015 MraZ protein; Region: MraZ; pfam02381 1136179004016 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 1136179004017 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 1136179004018 FAD binding site [chemical binding]; other site 1136179004019 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1136179004020 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 1136179004021 putative hydrophobic ligand binding site [chemical binding]; other site 1136179004022 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1136179004023 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1136179004024 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1136179004025 acyl-activating enzyme (AAE) consensus motif; other site 1136179004026 putative AMP binding site [chemical binding]; other site 1136179004027 putative active site [active] 1136179004028 putative CoA binding site [chemical binding]; other site 1136179004029 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1136179004030 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 1136179004031 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1136179004032 NlpC/P60 family; Region: NLPC_P60; pfam00877 1136179004033 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1136179004034 AsnC family; Region: AsnC_trans_reg; pfam01037 1136179004035 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1136179004036 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1136179004037 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1136179004038 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1136179004039 Cytochrome c; Region: Cytochrom_C; cl11414 1136179004040 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1136179004041 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1136179004042 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1136179004043 heme bH binding site [chemical binding]; other site 1136179004044 intrachain domain interface; other site 1136179004045 heme bL binding site [chemical binding]; other site 1136179004046 interchain domain interface [polypeptide binding]; other site 1136179004047 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 1136179004048 Qo binding site; other site 1136179004049 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 1136179004050 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 1136179004051 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 1136179004052 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1136179004053 dimer interface [polypeptide binding]; other site 1136179004054 active site 1136179004055 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 1136179004056 Ligand Binding Site [chemical binding]; other site 1136179004057 Molecular Tunnel; other site 1136179004058 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 1136179004059 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1136179004060 substrate binding site [chemical binding]; other site 1136179004061 ATP binding site [chemical binding]; other site 1136179004062 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 1136179004063 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1136179004064 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 1136179004065 homodimer interface [polypeptide binding]; other site 1136179004066 substrate-cofactor binding pocket; other site 1136179004067 catalytic residue [active] 1136179004068 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1136179004069 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1136179004070 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1136179004071 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 1136179004072 interface (dimer of trimers) [polypeptide binding]; other site 1136179004073 Substrate-binding/catalytic site; other site 1136179004074 Zn-binding sites [ion binding]; other site 1136179004075 lipoyl synthase; Provisional; Region: PRK05481 1136179004076 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 1136179004077 FeS/SAM binding site; other site 1136179004078 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 1136179004079 RDD family; Region: RDD; pfam06271 1136179004080 glutamine synthetase, type I; Region: GlnA; TIGR00653 1136179004081 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1136179004082 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1136179004083 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1136179004084 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 1136179004085 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 1136179004086 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cl00217 1136179004087 metal binding sites [ion binding]; metal-binding site 1136179004088 Actin depolymerization factor/cofilin- and gelsolin-like domains; Region: ADF_gelsolin; cl15697 1136179004089 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1136179004090 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1136179004091 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1136179004092 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 1136179004093 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1136179004094 NAD binding site [chemical binding]; other site 1136179004095 catalytic Zn binding site [ion binding]; other site 1136179004096 substrate binding site [chemical binding]; other site 1136179004097 structural Zn binding site [ion binding]; other site 1136179004098 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1136179004099 S-adenosylmethionine binding site [chemical binding]; other site 1136179004100 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 1136179004101 oligomerization interface [polypeptide binding]; other site 1136179004102 active site 1136179004103 metal binding site [ion binding]; metal-binding site 1136179004104 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 1136179004105 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1136179004106 Putative zinc ribbon domain; Region: DUF164; pfam02591 1136179004107 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1136179004108 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1136179004109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1136179004110 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1136179004111 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 1136179004112 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1136179004113 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1136179004114 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1136179004115 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1136179004116 acyl carrier protein; Provisional; Region: acpP; PRK00982 1136179004117 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07910 1136179004118 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 1136179004119 dimer interface [polypeptide binding]; other site 1136179004120 active site 1136179004121 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 1136179004122 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1136179004123 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 1136179004124 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1136179004125 NAD binding site [chemical binding]; other site 1136179004126 catalytic Zn binding site [ion binding]; other site 1136179004127 substrate binding site [chemical binding]; other site 1136179004128 structural Zn binding site [ion binding]; other site 1136179004129 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1136179004130 Histidine kinase; Region: HisKA_3; pfam07730 1136179004131 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179004132 ATP binding site [chemical binding]; other site 1136179004133 Mg2+ binding site [ion binding]; other site 1136179004134 G-X-G motif; other site 1136179004135 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1136179004136 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1136179004137 Walker A/P-loop; other site 1136179004138 ATP binding site [chemical binding]; other site 1136179004139 Q-loop/lid; other site 1136179004140 ABC transporter signature motif; other site 1136179004141 Walker B; other site 1136179004142 D-loop; other site 1136179004143 H-loop/switch region; other site 1136179004144 TOBE domain; Region: TOBE_2; pfam08402 1136179004145 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179004146 dimer interface [polypeptide binding]; other site 1136179004147 conserved gate region; other site 1136179004148 putative PBP binding loops; other site 1136179004149 ABC-ATPase subunit interface; other site 1136179004150 DNA primase; Validated; Region: dnaG; PRK05667 1136179004151 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1136179004152 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1136179004153 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 1136179004154 active site 1136179004155 metal binding site [ion binding]; metal-binding site 1136179004156 interdomain interaction site; other site 1136179004157 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1136179004158 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 1136179004159 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 1136179004160 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1136179004161 Zn2+ binding site [ion binding]; other site 1136179004162 Mg2+ binding site [ion binding]; other site 1136179004163 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 1136179004164 putative active site [active] 1136179004165 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1136179004166 Ligand binding site; other site 1136179004167 Putative Catalytic site; other site 1136179004168 DXD motif; other site 1136179004169 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1136179004170 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 1136179004171 non-specific DNA binding site [nucleotide binding]; other site 1136179004172 salt bridge; other site 1136179004173 sequence-specific DNA binding site [nucleotide binding]; other site 1136179004174 RibD C-terminal domain; Region: RibD_C; cl17279 1136179004175 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1136179004176 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1136179004177 motif 1; other site 1136179004178 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1136179004179 active site 1136179004180 motif 2; other site 1136179004181 motif 3; other site 1136179004182 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 1136179004183 anticodon binding site; other site 1136179004184 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 1136179004185 dimerization interface [polypeptide binding]; other site 1136179004186 putative DNA binding site [nucleotide binding]; other site 1136179004187 putative Zn2+ binding site [ion binding]; other site 1136179004188 DoxX-like family; Region: DoxX_2; pfam13564 1136179004189 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1136179004190 MarR family; Region: MarR; pfam01047 1136179004191 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1136179004192 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179004193 active site 1136179004194 phosphorylation site [posttranslational modification] 1136179004195 intermolecular recognition site; other site 1136179004196 dimerization interface [polypeptide binding]; other site 1136179004197 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 1136179004198 DNA binding site [nucleotide binding] 1136179004199 K+-transporting ATPase, c chain; Region: KdpC; cl00944 1136179004200 amidase; Provisional; Region: PRK06061 1136179004201 Amidase; Region: Amidase; cl11426 1136179004202 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179004203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179004204 GTPase Era; Reviewed; Region: era; PRK00089 1136179004205 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1136179004206 G1 box; other site 1136179004207 GTP/Mg2+ binding site [chemical binding]; other site 1136179004208 Switch I region; other site 1136179004209 G2 box; other site 1136179004210 Switch II region; other site 1136179004211 G3 box; other site 1136179004212 G4 box; other site 1136179004213 G5 box; other site 1136179004214 KH domain; Region: KH_2; pfam07650 1136179004215 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1136179004216 Domain of unknown function DUF21; Region: DUF21; pfam01595 1136179004217 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 1136179004218 metal-binding heat shock protein; Provisional; Region: PRK00016 1136179004219 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1136179004220 PhoH-like protein; Region: PhoH; pfam02562 1136179004221 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1136179004222 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 1136179004223 chaperone protein DnaJ; Provisional; Region: PRK14278 1136179004224 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 1136179004225 HSP70 interaction site [polypeptide binding]; other site 1136179004226 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1136179004227 Zn binding sites [ion binding]; other site 1136179004228 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1136179004229 dimer interface [polypeptide binding]; other site 1136179004230 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1136179004231 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1136179004232 Transcription regulator of the Arc/MetJ class [Transcription]; Region: COG5450 1136179004233 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1136179004234 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1136179004235 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1136179004236 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1136179004237 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 1136179004238 Active Sites [active] 1136179004239 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 1136179004240 Ligand Binding Site [chemical binding]; other site 1136179004241 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 1136179004242 Ligand Binding Site [chemical binding]; other site 1136179004243 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 1136179004244 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1136179004245 Walker A/P-loop; other site 1136179004246 ATP binding site [chemical binding]; other site 1136179004247 Q-loop/lid; other site 1136179004248 ABC transporter signature motif; other site 1136179004249 Walker B; other site 1136179004250 D-loop; other site 1136179004251 H-loop/switch region; other site 1136179004252 TOBE-like domain; Region: TOBE_3; pfam12857 1136179004253 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1136179004254 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179004255 dimer interface [polypeptide binding]; other site 1136179004256 conserved gate region; other site 1136179004257 putative PBP binding loops; other site 1136179004258 ABC-ATPase subunit interface; other site 1136179004259 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1136179004260 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179004261 dimer interface [polypeptide binding]; other site 1136179004262 conserved gate region; other site 1136179004263 putative PBP binding loops; other site 1136179004264 ABC-ATPase subunit interface; other site 1136179004265 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1136179004266 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1136179004267 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1136179004268 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1136179004269 GTP-binding protein LepA; Provisional; Region: PRK05433 1136179004270 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1136179004271 G1 box; other site 1136179004272 putative GEF interaction site [polypeptide binding]; other site 1136179004273 GTP/Mg2+ binding site [chemical binding]; other site 1136179004274 Switch I region; other site 1136179004275 G2 box; other site 1136179004276 G3 box; other site 1136179004277 Switch II region; other site 1136179004278 G4 box; other site 1136179004279 G5 box; other site 1136179004280 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 1136179004281 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 1136179004282 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1136179004283 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; cl00200 1136179004284 amphipathic channel; other site 1136179004285 Asn-Pro-Ala signature motifs; other site 1136179004286 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1136179004287 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1136179004288 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1136179004289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1136179004290 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1136179004291 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1136179004292 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1136179004293 hypothetical protein; Reviewed; Region: PRK07914 1136179004294 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1136179004295 EDD domain protein, DegV family; Region: DegV; TIGR00762 1136179004296 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1136179004297 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 1136179004298 catalytic core [active] 1136179004299 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1136179004300 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 1136179004301 metal ion-dependent adhesion site (MIDAS); other site 1136179004302 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1136179004303 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 1136179004304 Walker A motif; other site 1136179004305 ATP binding site [chemical binding]; other site 1136179004306 Walker B motif; other site 1136179004307 arginine finger; other site 1136179004308 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1136179004309 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1136179004310 active site 1136179004311 FMN binding site [chemical binding]; other site 1136179004312 substrate binding site [chemical binding]; other site 1136179004313 homotetramer interface [polypeptide binding]; other site 1136179004314 catalytic residue [active] 1136179004315 proline/glycine betaine transporter; Provisional; Region: PRK10642 1136179004316 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 1136179004317 putative substrate translocation pore; other site 1136179004318 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1136179004319 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1136179004320 Coenzyme A binding pocket [chemical binding]; other site 1136179004321 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 1136179004322 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_2; cd12159 1136179004323 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1136179004324 putative ligand binding site [chemical binding]; other site 1136179004325 putative NAD binding site [chemical binding]; other site 1136179004326 catalytic site [active] 1136179004327 gamma-glutamyl kinase; Provisional; Region: PRK05429 1136179004328 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 1136179004329 nucleotide binding site [chemical binding]; other site 1136179004330 homotetrameric interface [polypeptide binding]; other site 1136179004331 putative phosphate binding site [ion binding]; other site 1136179004332 putative allosteric binding site; other site 1136179004333 PUA domain; Region: PUA; pfam01472 1136179004334 GTPase CgtA; Reviewed; Region: obgE; PRK12296 1136179004335 GTP1/OBG; Region: GTP1_OBG; pfam01018 1136179004336 Obg GTPase; Region: Obg; cd01898 1136179004337 G1 box; other site 1136179004338 GTP/Mg2+ binding site [chemical binding]; other site 1136179004339 Switch I region; other site 1136179004340 G2 box; other site 1136179004341 G3 box; other site 1136179004342 Switch II region; other site 1136179004343 G4 box; other site 1136179004344 G5 box; other site 1136179004345 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1136179004346 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1136179004347 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1136179004348 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 1136179004349 active site 1136179004350 multimer interface [polypeptide binding]; other site 1136179004351 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 1136179004352 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1136179004353 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1136179004354 HIGH motif; other site 1136179004355 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1136179004356 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1136179004357 active site 1136179004358 KMSKS motif; other site 1136179004359 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1136179004360 tRNA binding surface [nucleotide binding]; other site 1136179004361 anticodon binding site; other site 1136179004362 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1136179004363 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1136179004364 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179004365 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179004366 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1136179004367 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1136179004368 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 1136179004369 Walker A motif; other site 1136179004370 ATP binding site [chemical binding]; other site 1136179004371 Walker B motif; other site 1136179004372 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1136179004373 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1136179004374 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1136179004375 oligomer interface [polypeptide binding]; other site 1136179004376 active site residues [active] 1136179004377 Clp protease; Region: CLP_protease; pfam00574 1136179004378 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1136179004379 oligomer interface [polypeptide binding]; other site 1136179004380 active site residues [active] 1136179004381 trigger factor; Provisional; Region: tig; PRK01490 1136179004382 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1136179004383 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1136179004384 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1136179004385 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 1136179004386 putative DNA binding site [nucleotide binding]; other site 1136179004387 catalytic residue [active] 1136179004388 putative H2TH interface [polypeptide binding]; other site 1136179004389 putative catalytic residues [active] 1136179004390 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1136179004391 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1136179004392 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1136179004393 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1136179004394 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1136179004395 Repair protein; Region: Repair_PSII; pfam04536 1136179004396 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1136179004397 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1136179004398 active site 1136179004399 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1136179004400 apolar tunnel; other site 1136179004401 heme binding site [chemical binding]; other site 1136179004402 dimerization interface [polypeptide binding]; other site 1136179004403 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1136179004404 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 1136179004405 active site 1136179004406 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 1136179004407 active site 1136179004408 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179004409 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179004410 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1136179004411 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1136179004412 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179004413 Walker A/P-loop; other site 1136179004414 ATP binding site [chemical binding]; other site 1136179004415 Q-loop/lid; other site 1136179004416 ABC transporter signature motif; other site 1136179004417 Walker B; other site 1136179004418 D-loop; other site 1136179004419 H-loop/switch region; other site 1136179004420 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1136179004421 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 1136179004422 dimer interface [polypeptide binding]; other site 1136179004423 ssDNA binding site [nucleotide binding]; other site 1136179004424 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1136179004425 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1136179004426 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 1136179004427 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 1136179004428 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1136179004429 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 1136179004430 glutamate dehydrogenase; Provisional; Region: PRK09414 1136179004431 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1136179004432 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1136179004433 NAD(P) binding site [chemical binding]; other site 1136179004434 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1136179004435 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1136179004436 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1136179004437 putative di-iron ligands [ion binding]; other site 1136179004438 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1136179004439 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179004440 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 1136179004441 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1136179004442 active site 2 [active] 1136179004443 active site 1 [active] 1136179004444 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II; cd00556 1136179004445 active site 1136179004446 dimer interface [polypeptide binding]; other site 1136179004447 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1136179004448 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 1136179004449 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1136179004450 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1136179004451 active site 1136179004452 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1136179004453 substrate binding site [chemical binding]; other site 1136179004454 catalytic residues [active] 1136179004455 dimer interface [polypeptide binding]; other site 1136179004456 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1136179004457 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1136179004458 catalytic site [active] 1136179004459 putative active site [active] 1136179004460 putative substrate binding site [chemical binding]; other site 1136179004461 dimer interface [polypeptide binding]; other site 1136179004462 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1136179004463 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1136179004464 DNA binding residues [nucleotide binding] 1136179004465 putative dimer interface [polypeptide binding]; other site 1136179004466 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1136179004467 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 1136179004468 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 1136179004469 active site 1136179004470 dimerization interface [polypeptide binding]; other site 1136179004471 ribonuclease PH; Reviewed; Region: rph; PRK00173 1136179004472 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1136179004473 hexamer interface [polypeptide binding]; other site 1136179004474 active site 1136179004475 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 1136179004476 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 1136179004477 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1136179004478 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1136179004479 dimer interface [polypeptide binding]; other site 1136179004480 substrate binding site [chemical binding]; other site 1136179004481 metal binding site [ion binding]; metal-binding site 1136179004482 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]; Region: COG1637 1136179004483 hypothetical protein; Provisional; Region: PRK03298 1136179004484 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1136179004485 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 1136179004486 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1136179004487 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1136179004488 gamma subunit interface [polypeptide binding]; other site 1136179004489 epsilon subunit interface [polypeptide binding]; other site 1136179004490 LBP interface [polypeptide binding]; other site 1136179004491 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1136179004492 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1136179004493 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 1136179004494 alpha subunit interaction interface [polypeptide binding]; other site 1136179004495 Walker A motif; other site 1136179004496 ATP binding site [chemical binding]; other site 1136179004497 Walker B motif; other site 1136179004498 inhibitor binding site; inhibition site 1136179004499 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1136179004500 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1136179004501 core domain interface [polypeptide binding]; other site 1136179004502 delta subunit interface [polypeptide binding]; other site 1136179004503 epsilon subunit interface [polypeptide binding]; other site 1136179004504 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1136179004505 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1136179004506 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 1136179004507 beta subunit interaction interface [polypeptide binding]; other site 1136179004508 Walker A motif; other site 1136179004509 ATP binding site [chemical binding]; other site 1136179004510 Walker B motif; other site 1136179004511 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1136179004512 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13430 1136179004513 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1136179004514 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1136179004515 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1136179004516 F0F1 ATP synthase subunit C; Validated; Region: PRK07874 1136179004517 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1136179004518 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1136179004519 Mg++ binding site [ion binding]; other site 1136179004520 putative catalytic motif [active] 1136179004521 substrate binding site [chemical binding]; other site 1136179004522 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1136179004523 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1136179004524 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 1136179004525 S-adenosylmethionine binding site [chemical binding]; other site 1136179004526 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1136179004527 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1136179004528 RF-1 domain; Region: RF-1; pfam00472 1136179004529 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1136179004530 homoserine kinase; Provisional; Region: PRK01212 1136179004531 threonine synthase; Reviewed; Region: PRK06721 1136179004532 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 1136179004533 homodimer interface [polypeptide binding]; other site 1136179004534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179004535 catalytic residue [active] 1136179004536 homoserine dehydrogenase; Provisional; Region: PRK06349 1136179004537 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1136179004538 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1136179004539 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 1136179004540 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1136179004541 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1136179004542 active site 1136179004543 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1136179004544 substrate binding site [chemical binding]; other site 1136179004545 catalytic residues [active] 1136179004546 dimer interface [polypeptide binding]; other site 1136179004547 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1136179004548 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1136179004549 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1136179004550 active site 1136179004551 HIGH motif; other site 1136179004552 KMSK motif region; other site 1136179004553 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1136179004554 tRNA binding surface [nucleotide binding]; other site 1136179004555 anticodon binding site; other site 1136179004556 Protein of unknown function (DUF3105); Region: DUF3105; pfam11303 1136179004557 Domain of unknown function (DUF305); Region: DUF305; pfam03713 1136179004558 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 1136179004559 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1136179004560 putative substrate translocation pore; other site 1136179004561 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 1136179004562 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1136179004563 MarR family; Region: MarR_2; pfam12802 1136179004564 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 1136179004565 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1136179004566 putative active site [active] 1136179004567 putative ligand binding site [chemical binding]; other site 1136179004568 putative NAD(P) binding site [chemical binding]; other site 1136179004569 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 1136179004570 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1136179004571 active site 1136179004572 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1136179004573 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 1136179004574 Active Sites [active] 1136179004575 short chain dehydrogenase; Provisional; Region: PRK07890 1136179004576 classical (c) SDRs; Region: SDR_c; cd05233 1136179004577 NAD(P) binding site [chemical binding]; other site 1136179004578 active site 1136179004579 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 1136179004580 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1136179004581 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1136179004582 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179004583 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179004584 enoyl-CoA hydratase; Provisional; Region: PRK05862 1136179004585 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179004586 substrate binding site [chemical binding]; other site 1136179004587 oxyanion hole (OAH) forming residues; other site 1136179004588 trimer interface [polypeptide binding]; other site 1136179004589 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1136179004590 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1136179004591 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1136179004592 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179004593 substrate binding site [chemical binding]; other site 1136179004594 oxyanion hole (OAH) forming residues; other site 1136179004595 trimer interface [polypeptide binding]; other site 1136179004596 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1136179004597 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1136179004598 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1136179004599 tetrameric interface [polypeptide binding]; other site 1136179004600 NAD binding site [chemical binding]; other site 1136179004601 catalytic residues [active] 1136179004602 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 1136179004603 dimerization domain swap beta strand [polypeptide binding]; other site 1136179004604 regulatory protein interface [polypeptide binding]; other site 1136179004605 active site 1136179004606 regulatory phosphorylation site [posttranslational modification]; other site 1136179004607 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1136179004608 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1136179004609 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1136179004610 active site turn [active] 1136179004611 phosphorylation site [posttranslational modification] 1136179004612 Uncharacterized conserved protein [Function unknown]; Region: COG4279 1136179004613 SWIM zinc finger; Region: SWIM; pfam04434 1136179004614 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1136179004615 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1136179004616 Moco binding site; other site 1136179004617 metal coordination site [ion binding]; other site 1136179004618 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1136179004619 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1136179004620 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1136179004621 AsnC family; Region: AsnC_trans_reg; pfam01037 1136179004622 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1136179004623 benzoate transporter; Region: benE; TIGR00843 1136179004624 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1136179004625 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1136179004626 Coenzyme A binding pocket [chemical binding]; other site 1136179004627 NMT1/THI5 like; Region: NMT1; pfam09084 1136179004628 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1136179004629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179004630 dimer interface [polypeptide binding]; other site 1136179004631 conserved gate region; other site 1136179004632 putative PBP binding loops; other site 1136179004633 ABC-ATPase subunit interface; other site 1136179004634 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1136179004635 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1136179004636 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1136179004637 NAD binding site [chemical binding]; other site 1136179004638 Phe binding site; other site 1136179004639 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1136179004640 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 1136179004641 putative DNA binding site [nucleotide binding]; other site 1136179004642 putative Zn2+ binding site [ion binding]; other site 1136179004643 AsnC family; Region: AsnC_trans_reg; pfam01037 1136179004644 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 1136179004645 active site 1136179004646 homopentamer interface [polypeptide binding]; other site 1136179004647 dimer interface [polypeptide binding]; other site 1136179004648 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1136179004649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179004650 active site 1136179004651 phosphorylation site [posttranslational modification] 1136179004652 intermolecular recognition site; other site 1136179004653 dimerization interface [polypeptide binding]; other site 1136179004654 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1136179004655 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1136179004656 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1136179004657 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1136179004658 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1136179004659 putative NAD(P) binding site [chemical binding]; other site 1136179004660 catalytic Zn binding site [ion binding]; other site 1136179004661 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1136179004662 DNA binding residues [nucleotide binding] 1136179004663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1136179004664 Transposase; Region: HTH_Tnp_1; cl17663 1136179004665 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 1136179004666 Ligand Binding Site [chemical binding]; other site 1136179004667 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 1136179004668 Ligand Binding Site [chemical binding]; other site 1136179004669 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1136179004670 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1136179004671 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1136179004672 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1136179004673 putative metal binding site [ion binding]; other site 1136179004674 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1136179004675 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 1136179004676 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 1136179004677 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1136179004678 active site 1136179004679 catalytic tetrad [active] 1136179004680 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1136179004681 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179004682 active site 1136179004683 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1136179004684 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1136179004685 Walker A/P-loop; other site 1136179004686 ATP binding site [chemical binding]; other site 1136179004687 Q-loop/lid; other site 1136179004688 ABC transporter signature motif; other site 1136179004689 Walker B; other site 1136179004690 D-loop; other site 1136179004691 H-loop/switch region; other site 1136179004692 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1136179004693 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 1136179004694 ATP binding site [chemical binding]; other site 1136179004695 Mg++ binding site [ion binding]; other site 1136179004696 motif III; other site 1136179004697 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 1136179004698 nucleotide binding region [chemical binding]; other site 1136179004699 ATP-binding site [chemical binding]; other site 1136179004700 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1136179004701 putative RNA binding site [nucleotide binding]; other site 1136179004702 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 1136179004703 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1136179004704 putative active site [active] 1136179004705 catalytic triad [active] 1136179004706 putative dimer interface [polypeptide binding]; other site 1136179004707 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1136179004708 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1136179004709 acyl-activating enzyme (AAE) consensus motif; other site 1136179004710 putative AMP binding site [chemical binding]; other site 1136179004711 putative active site [active] 1136179004712 putative CoA binding site [chemical binding]; other site 1136179004713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179004714 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 1136179004715 FAD binding domain; Region: FAD_binding_4; pfam01565 1136179004716 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1136179004717 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1136179004718 adenosine deaminase; Provisional; Region: PRK09358 1136179004719 active site 1136179004720 enoyl-CoA hydratase; Provisional; Region: PRK08252 1136179004721 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179004722 substrate binding site [chemical binding]; other site 1136179004723 oxyanion hole (OAH) forming residues; other site 1136179004724 trimer interface [polypeptide binding]; other site 1136179004725 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 1136179004726 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1136179004727 putative substrate translocation pore; other site 1136179004728 Predicted transcriptional regulators [Transcription]; Region: COG1695 1136179004729 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1136179004730 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 1136179004731 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1136179004732 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1136179004733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179004734 Walker A/P-loop; other site 1136179004735 ATP binding site [chemical binding]; other site 1136179004736 Q-loop/lid; other site 1136179004737 ABC transporter signature motif; other site 1136179004738 Walker B; other site 1136179004739 D-loop; other site 1136179004740 H-loop/switch region; other site 1136179004741 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179004742 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179004743 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1136179004744 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1136179004745 short chain dehydrogenase; Provisional; Region: PRK07832 1136179004746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179004747 NAD(P) binding site [chemical binding]; other site 1136179004748 active site 1136179004749 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1136179004750 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1136179004751 Walker A/P-loop; other site 1136179004752 ATP binding site [chemical binding]; other site 1136179004753 Q-loop/lid; other site 1136179004754 ABC transporter signature motif; other site 1136179004755 Walker B; other site 1136179004756 D-loop; other site 1136179004757 H-loop/switch region; other site 1136179004758 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179004759 dimer interface [polypeptide binding]; other site 1136179004760 conserved gate region; other site 1136179004761 ABC-ATPase subunit interface; other site 1136179004762 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1136179004763 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179004764 ABC-ATPase subunit interface; other site 1136179004765 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1136179004766 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1136179004767 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 1136179004768 NAD(P) binding pocket [chemical binding]; other site 1136179004769 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1136179004770 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1136179004771 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1136179004772 active site 1136179004773 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1136179004774 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 1136179004775 putative hydrophobic ligand binding site [chemical binding]; other site 1136179004776 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1136179004777 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1136179004778 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1136179004779 Walker A/P-loop; other site 1136179004780 ATP binding site [chemical binding]; other site 1136179004781 Q-loop/lid; other site 1136179004782 ABC transporter signature motif; other site 1136179004783 Walker B; other site 1136179004784 D-loop; other site 1136179004785 H-loop/switch region; other site 1136179004786 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1136179004787 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179004788 dimer interface [polypeptide binding]; other site 1136179004789 conserved gate region; other site 1136179004790 putative PBP binding loops; other site 1136179004791 ABC-ATPase subunit interface; other site 1136179004792 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1136179004793 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179004794 dimer interface [polypeptide binding]; other site 1136179004795 conserved gate region; other site 1136179004796 putative PBP binding loops; other site 1136179004797 ABC-ATPase subunit interface; other site 1136179004798 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1136179004799 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1136179004800 MgtE intracellular N domain; Region: MgtE_N; smart00924 1136179004801 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 1136179004802 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 1136179004803 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 1136179004804 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1136179004805 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1136179004806 Domain of unknown function DUF59; Region: DUF59; cl00941 1136179004807 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1136179004808 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 1136179004809 sec-independent translocase; Provisional; Region: PRK03100 1136179004810 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 1136179004811 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1136179004812 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 1136179004813 DNA binding residues [nucleotide binding] 1136179004814 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1136179004815 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 1136179004816 S-adenosylmethionine binding site [chemical binding]; other site 1136179004817 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 1136179004818 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1136179004819 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 1136179004820 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1136179004821 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1136179004822 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 1136179004823 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 1136179004824 putative trimer interface [polypeptide binding]; other site 1136179004825 putative CoA binding site [chemical binding]; other site 1136179004826 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1136179004827 Ferredoxin [Energy production and conversion]; Region: COG1146 1136179004828 4Fe-4S binding domain; Region: Fer4; pfam00037 1136179004829 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1136179004830 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1136179004831 G1 box; other site 1136179004832 putative GEF interaction site [polypeptide binding]; other site 1136179004833 GTP/Mg2+ binding site [chemical binding]; other site 1136179004834 Switch I region; other site 1136179004835 G2 box; other site 1136179004836 G3 box; other site 1136179004837 Switch II region; other site 1136179004838 G4 box; other site 1136179004839 G5 box; other site 1136179004840 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 1136179004841 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 1136179004842 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 1136179004843 aromatic arch; other site 1136179004844 DCoH dimer interaction site [polypeptide binding]; other site 1136179004845 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1136179004846 DCoH tetramer interaction site [polypeptide binding]; other site 1136179004847 substrate binding site [chemical binding]; other site 1136179004848 SnoaL-like domain; Region: SnoaL_2; pfam12680 1136179004849 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 1136179004850 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1136179004851 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1136179004852 siderophore binding site; other site 1136179004853 fumarate hydratase; Provisional; Region: PRK15389 1136179004854 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1136179004855 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1136179004856 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 1136179004857 putative hydrophobic ligand binding site [chemical binding]; other site 1136179004858 GTP-binding protein YchF; Reviewed; Region: PRK09601 1136179004859 YchF GTPase; Region: YchF; cd01900 1136179004860 G1 box; other site 1136179004861 GTP/Mg2+ binding site [chemical binding]; other site 1136179004862 Switch I region; other site 1136179004863 G2 box; other site 1136179004864 Switch II region; other site 1136179004865 G3 box; other site 1136179004866 G4 box; other site 1136179004867 G5 box; other site 1136179004868 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 1136179004869 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1136179004870 Carbon starvation protein CstA; Region: CstA; pfam02554 1136179004871 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1136179004872 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1136179004873 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1136179004874 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1136179004875 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1136179004876 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1136179004877 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 1136179004878 generic binding surface II; other site 1136179004879 generic binding surface I; other site 1136179004880 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1136179004881 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 1136179004882 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 1136179004883 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1136179004884 putative active site [active] 1136179004885 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1136179004886 Class II fumarases; Region: Fumarase_classII; cd01362 1136179004887 active site 1136179004888 tetramer interface [polypeptide binding]; other site 1136179004889 Domain of unknown function (DUF385); Region: DUF385; cl04387 1136179004890 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179004891 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179004892 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 1136179004893 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1136179004894 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179004895 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 1136179004896 DNA binding residues [nucleotide binding] 1136179004897 dimerization interface [polypeptide binding]; other site 1136179004898 pantothenate kinase; Provisional; Region: PRK05439 1136179004899 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1136179004900 ATP-binding site [chemical binding]; other site 1136179004901 CoA-binding site [chemical binding]; other site 1136179004902 Mg2+-binding site [ion binding]; other site 1136179004903 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 1136179004904 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1136179004905 catalytic residue [active] 1136179004906 putative FPP diphosphate binding site; other site 1136179004907 putative FPP binding hydrophobic cleft; other site 1136179004908 dimer interface [polypeptide binding]; other site 1136179004909 putative IPP diphosphate binding site; other site 1136179004910 mycothiol conjugate amidase Mca; Region: mycothiol_Mca; TIGR03446 1136179004911 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1136179004912 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1136179004913 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1136179004914 cystathionine gamma-synthase; Provisional; Region: PRK07811 1136179004915 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 1136179004916 homodimer interface [polypeptide binding]; other site 1136179004917 substrate-cofactor binding pocket; other site 1136179004918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179004919 catalytic residue [active] 1136179004920 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 1136179004921 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 1136179004922 dimer interface [polypeptide binding]; other site 1136179004923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179004924 catalytic residue [active] 1136179004925 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 1136179004926 acetyl-CoA acetyltransferase; Provisional; Region: PRK07851 1136179004927 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1136179004928 dimer interface [polypeptide binding]; other site 1136179004929 active site 1136179004930 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 1136179004931 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1136179004932 putative metal binding site [ion binding]; other site 1136179004933 Uncharacterized conserved protein [Function unknown]; Region: COG1507 1136179004934 Septum formation initiator; Region: DivIC; pfam04977 1136179004935 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1136179004936 enolase; Provisional; Region: eno; PRK00077 1136179004937 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 1136179004938 dimer interface [polypeptide binding]; other site 1136179004939 metal binding site [ion binding]; metal-binding site 1136179004940 substrate binding pocket [chemical binding]; other site 1136179004941 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1136179004942 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1136179004943 Iron permease FTR1 family; Region: FTR1; cl00475 1136179004944 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1136179004945 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 1136179004946 Imelysin; Region: Peptidase_M75; pfam09375 1136179004947 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1136179004948 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1136179004949 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1136179004950 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1136179004951 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1136179004952 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 1136179004953 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1136179004954 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1136179004955 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 1136179004956 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179004957 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179004958 active site 1136179004959 acyl carrier protein; Provisional; Region: PRK07081 1136179004960 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179004961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179004962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179004963 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179004964 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 1136179004965 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 1136179004966 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1136179004967 Substrate binding site; other site 1136179004968 Mg++ binding site; other site 1136179004969 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 1136179004970 active site 1136179004971 substrate binding site [chemical binding]; other site 1136179004972 CoA binding site [chemical binding]; other site 1136179004973 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 1136179004974 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1136179004975 putative active site [active] 1136179004976 putative dimer interface [polypeptide binding]; other site 1136179004977 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1136179004978 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1136179004979 5S rRNA interface [nucleotide binding]; other site 1136179004980 CTC domain interface [polypeptide binding]; other site 1136179004981 L16 interface [polypeptide binding]; other site 1136179004982 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 1136179004983 putative active site [active] 1136179004984 catalytic residue [active] 1136179004985 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1136179004986 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1136179004987 G1 box; other site 1136179004988 putative GEF interaction site [polypeptide binding]; other site 1136179004989 GTP/Mg2+ binding site [chemical binding]; other site 1136179004990 Switch I region; other site 1136179004991 G2 box; other site 1136179004992 G3 box; other site 1136179004993 Switch II region; other site 1136179004994 G4 box; other site 1136179004995 G5 box; other site 1136179004996 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 1136179004997 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1136179004998 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179004999 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 1136179005000 DNA-binding interface [nucleotide binding]; DNA binding site 1136179005001 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1136179005002 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1136179005003 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1136179005004 Walker A/P-loop; other site 1136179005005 ATP binding site [chemical binding]; other site 1136179005006 Q-loop/lid; other site 1136179005007 ABC transporter signature motif; other site 1136179005008 Walker B; other site 1136179005009 D-loop; other site 1136179005010 H-loop/switch region; other site 1136179005011 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1136179005012 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 1136179005013 ABC-ATPase subunit interface; other site 1136179005014 dimer interface [polypeptide binding]; other site 1136179005015 putative PBP binding regions; other site 1136179005016 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1136179005017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179005018 Walker A/P-loop; other site 1136179005019 ATP binding site [chemical binding]; other site 1136179005020 ABC transporter; Region: ABC_tran; pfam00005 1136179005021 Q-loop/lid; other site 1136179005022 ABC transporter signature motif; other site 1136179005023 Walker B; other site 1136179005024 D-loop; other site 1136179005025 H-loop/switch region; other site 1136179005026 Cupin domain; Region: Cupin_2; cl17218 1136179005027 Helix-turn-helix domain; Region: HTH_18; pfam12833 1136179005028 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1136179005029 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1136179005030 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1136179005031 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 1136179005032 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1136179005033 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1136179005034 DNA-binding site [nucleotide binding]; DNA binding site 1136179005035 RNA-binding motif; other site 1136179005036 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 1136179005037 metal-binding site [ion binding] 1136179005038 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1136179005039 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 1136179005040 metal-binding site [ion binding] 1136179005041 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1136179005042 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1136179005043 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 1136179005044 S-adenosylmethionine binding site [chemical binding]; other site 1136179005045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 1136179005046 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1136179005047 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1136179005048 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1136179005049 G5 domain; Region: G5; pfam07501 1136179005050 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1136179005051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 1136179005052 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1136179005053 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1136179005054 G5 domain; Region: G5; pfam07501 1136179005055 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1136179005056 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1136179005057 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 1136179005058 substrate binding pocket [chemical binding]; other site 1136179005059 membrane-bound complex binding site; other site 1136179005060 hinge residues; other site 1136179005061 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1136179005062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179005063 dimer interface [polypeptide binding]; other site 1136179005064 conserved gate region; other site 1136179005065 putative PBP binding loops; other site 1136179005066 ABC-ATPase subunit interface; other site 1136179005067 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1136179005068 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1136179005069 active site 1136179005070 HIGH motif; other site 1136179005071 KMSKS motif; other site 1136179005072 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1136179005073 tRNA binding surface [nucleotide binding]; other site 1136179005074 anticodon binding site; other site 1136179005075 Predicted methyltransferases [General function prediction only]; Region: COG0313 1136179005076 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1136179005077 putative SAM binding site [chemical binding]; other site 1136179005078 putative homodimer interface [polypeptide binding]; other site 1136179005079 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1136179005080 BCCT family transporter; Region: BCCT; pfam02028 1136179005081 Predicted membrane protein [Function unknown]; Region: COG2259 1136179005082 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1136179005083 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1136179005084 DNA binding residues [nucleotide binding] 1136179005085 dimer interface [polypeptide binding]; other site 1136179005086 [2Fe-2S] cluster binding site [ion binding]; other site 1136179005087 short chain dehydrogenase; Provisional; Region: PRK07832 1136179005088 classical (c) SDRs; Region: SDR_c; cd05233 1136179005089 NAD(P) binding site [chemical binding]; other site 1136179005090 active site 1136179005091 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 1136179005092 sequence-specific DNA binding site [nucleotide binding]; other site 1136179005093 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1136179005094 salt bridge; other site 1136179005095 Domain of unknown function (DUF955); Region: DUF955; cl01076 1136179005096 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1136179005097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1136179005098 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1136179005099 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 1136179005100 dimer interface [polypeptide binding]; other site 1136179005101 putative functional site; other site 1136179005102 putative MPT binding site; other site 1136179005103 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1136179005104 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1136179005105 active site 1136179005106 tetramer interface; other site 1136179005107 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1136179005108 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1136179005109 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 1136179005110 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 1136179005111 MPT binding site; other site 1136179005112 trimer interface [polypeptide binding]; other site 1136179005113 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179005114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179005115 active site 1136179005116 phosphorylation site [posttranslational modification] 1136179005117 intermolecular recognition site; other site 1136179005118 dimerization interface [polypeptide binding]; other site 1136179005119 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 1136179005120 DNA binding site [nucleotide binding] 1136179005121 Predicted membrane protein [Function unknown]; Region: COG2860 1136179005122 UPF0126 domain; Region: UPF0126; pfam03458 1136179005123 UPF0126 domain; Region: UPF0126; pfam03458 1136179005124 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1136179005125 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1136179005126 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1136179005127 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1136179005128 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1136179005129 30S ribosomal protein S18; Provisional; Region: PRK13401 1136179005130 Predicted permeases [General function prediction only]; Region: COG0679 1136179005131 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1136179005132 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1136179005133 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1136179005134 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1136179005135 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 1136179005136 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1136179005137 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 1136179005138 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1136179005139 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1136179005140 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1136179005141 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 1136179005142 purine monophosphate binding site [chemical binding]; other site 1136179005143 dimer interface [polypeptide binding]; other site 1136179005144 putative catalytic residues [active] 1136179005145 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1136179005146 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1136179005147 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1136179005148 CoA binding domain; Region: CoA_binding; smart00881 1136179005149 CoA-ligase; Region: Ligase_CoA; pfam00549 1136179005150 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1136179005151 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1136179005152 CoA-ligase; Region: Ligase_CoA; pfam00549 1136179005153 hypothetical protein; Provisional; Region: PRK07857 1136179005154 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 1136179005155 sequence-specific DNA binding site [nucleotide binding]; other site 1136179005156 salt bridge; other site 1136179005157 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1136179005158 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1136179005159 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1136179005160 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1136179005161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 1136179005162 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1136179005163 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1136179005164 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1136179005165 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1136179005166 short chain dehydrogenase; Provisional; Region: PRK08251 1136179005167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179005168 NAD(P) binding site [chemical binding]; other site 1136179005169 active site 1136179005170 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1136179005171 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1136179005172 substrate binding pocket [chemical binding]; other site 1136179005173 catalytic triad [active] 1136179005174 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 1136179005175 non-specific DNA binding site [nucleotide binding]; other site 1136179005176 salt bridge; other site 1136179005177 sequence-specific DNA binding site [nucleotide binding]; other site 1136179005178 Cupin domain; Region: Cupin_2; pfam07883 1136179005179 Domain of unknown function (DUF385); Region: DUF385; cl04387 1136179005180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1136179005181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1136179005182 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 1136179005183 putative dimerization interface [polypeptide binding]; other site 1136179005184 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1136179005185 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_1; cd08973 1136179005186 putative DNA binding site [nucleotide binding]; other site 1136179005187 catalytic residue [active] 1136179005188 putative H2TH interface [polypeptide binding]; other site 1136179005189 putative catalytic residues [active] 1136179005190 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1136179005191 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1136179005192 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1136179005193 active site 1136179005194 SAM binding site [chemical binding]; other site 1136179005195 homodimer interface [polypeptide binding]; other site 1136179005196 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1136179005197 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1136179005198 folate binding site [chemical binding]; other site 1136179005199 NADP+ binding site [chemical binding]; other site 1136179005200 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1136179005201 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179005202 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179005203 active site 1136179005204 phosphorylation site [posttranslational modification] 1136179005205 intermolecular recognition site; other site 1136179005206 dimerization interface [polypeptide binding]; other site 1136179005207 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 1136179005208 DNA binding residues [nucleotide binding] 1136179005209 dimerization interface [polypeptide binding]; other site 1136179005210 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 1136179005211 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1136179005212 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1136179005213 Peptidase family M23; Region: Peptidase_M23; pfam01551 1136179005214 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1136179005215 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 1136179005216 motif II; other site 1136179005217 Transcription factor WhiB; Region: Whib; pfam02467 1136179005218 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1136179005219 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1136179005220 nucleotide binding site [chemical binding]; other site 1136179005221 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 1136179005222 metabolite-proton symporter; Region: 2A0106; TIGR00883 1136179005223 putative substrate translocation pore; other site 1136179005224 SnoaL-like domain; Region: SnoaL_2; pfam12680 1136179005225 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1136179005226 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 1136179005227 TM-ABC transporter signature motif; other site 1136179005228 SnoaL-like domain; Region: SnoaL_4; pfam13577 1136179005229 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 1136179005230 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 1136179005231 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1136179005232 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1136179005233 active site 1136179005234 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1136179005235 catalytic triad [active] 1136179005236 dimer interface [polypeptide binding]; other site 1136179005237 Predicted transcriptional regulators [Transcription]; Region: COG1733 1136179005238 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1136179005239 Predicted transcriptional regulators [Transcription]; Region: COG1733 1136179005240 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1136179005241 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179005242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179005243 active site 1136179005244 phosphorylation site [posttranslational modification] 1136179005245 intermolecular recognition site; other site 1136179005246 dimerization interface [polypeptide binding]; other site 1136179005247 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 1136179005248 DNA binding site [nucleotide binding] 1136179005249 Transcription factor WhiB; Region: Whib; pfam02467 1136179005250 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1136179005251 hydrophobic ligand binding site; other site 1136179005252 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1136179005253 Secretory lipase; Region: LIP; pfam03583 1136179005254 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1136179005255 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1136179005256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1136179005257 metal binding site [ion binding]; metal-binding site 1136179005258 active site 1136179005259 I-site; other site 1136179005260 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1136179005261 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1136179005262 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1136179005263 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1136179005264 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1136179005265 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179005266 substrate binding site [chemical binding]; other site 1136179005267 oxyanion hole (OAH) forming residues; other site 1136179005268 trimer interface [polypeptide binding]; other site 1136179005269 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 1136179005270 Protein of unknown function (DUF742); Region: DUF742; pfam05331 1136179005271 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1136179005272 Conserved hypothetical ATP binding protein; Region: ATP_bind_1; pfam03029 1136179005273 G1 box; other site 1136179005274 GTP/Mg2+ binding site [chemical binding]; other site 1136179005275 G2 box; other site 1136179005276 Switch I region; other site 1136179005277 G3 box; other site 1136179005278 Switch II region; other site 1136179005279 G4 box; other site 1136179005280 G5 box; other site 1136179005281 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1136179005282 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1136179005283 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1136179005284 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 1136179005285 non-specific DNA binding site [nucleotide binding]; other site 1136179005286 salt bridge; other site 1136179005287 sequence-specific DNA binding site [nucleotide binding]; other site 1136179005288 Cupin domain; Region: Cupin_2; pfam07883 1136179005289 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1136179005290 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 1136179005291 putative DNA binding site [nucleotide binding]; other site 1136179005292 putative Zn2+ binding site [ion binding]; other site 1136179005293 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 1136179005294 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1136179005295 putative active site [active] 1136179005296 putative FMN binding site [chemical binding]; other site 1136179005297 putative substrate binding site [chemical binding]; other site 1136179005298 putative catalytic residue [active] 1136179005299 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1136179005300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179005301 Walker A/P-loop; other site 1136179005302 ATP binding site [chemical binding]; other site 1136179005303 Q-loop/lid; other site 1136179005304 ABC transporter signature motif; other site 1136179005305 Walker B; other site 1136179005306 D-loop; other site 1136179005307 H-loop/switch region; other site 1136179005308 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1136179005309 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1136179005310 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 1136179005311 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1136179005312 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 1136179005313 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179005314 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179005315 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179005316 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179005317 active site 1136179005318 phosphorylation site [posttranslational modification] 1136179005319 intermolecular recognition site; other site 1136179005320 dimerization interface [polypeptide binding]; other site 1136179005321 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 1136179005322 DNA binding site [nucleotide binding] 1136179005323 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1136179005324 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 1136179005325 phosphorylation site [posttranslational modification] 1136179005326 dimer interface [polypeptide binding]; other site 1136179005327 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179005328 ATP binding site [chemical binding]; other site 1136179005329 Mg2+ binding site [ion binding]; other site 1136179005330 G-X-G motif; other site 1136179005331 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1136179005332 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1136179005333 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1136179005334 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 1136179005335 active site clefts [active] 1136179005336 zinc binding site [ion binding]; other site 1136179005337 dimer interface [polypeptide binding]; other site 1136179005338 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 1136179005339 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1136179005340 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 1136179005341 tetramer interface [polypeptide binding]; other site 1136179005342 TPP-binding site [chemical binding]; other site 1136179005343 heterodimer interface [polypeptide binding]; other site 1136179005344 phosphorylation loop region [posttranslational modification] 1136179005345 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1136179005346 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 1136179005347 amphipathic channel; other site 1136179005348 Asn-Pro-Ala signature motifs; other site 1136179005349 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1136179005350 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 1136179005351 DNA binding residues [nucleotide binding] 1136179005352 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1136179005353 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179005354 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179005355 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1136179005356 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1136179005357 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1136179005358 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1136179005359 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 1136179005360 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1136179005361 dimer interface [polypeptide binding]; other site 1136179005362 active site 1136179005363 citrylCoA binding site [chemical binding]; other site 1136179005364 NADH binding [chemical binding]; other site 1136179005365 cationic pore residues; other site 1136179005366 oxalacetate/citrate binding site [chemical binding]; other site 1136179005367 coenzyme A binding site [chemical binding]; other site 1136179005368 catalytic triad [active] 1136179005369 citrate synthase 2; Provisional; Region: PRK12350 1136179005370 Citrate synthase; Region: Citrate_synt; pfam00285 1136179005371 oxalacetate binding site [chemical binding]; other site 1136179005372 citrylCoA binding site [chemical binding]; other site 1136179005373 coenzyme A binding site [chemical binding]; other site 1136179005374 catalytic triad [active] 1136179005375 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 1136179005376 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1136179005377 catalytic residue [active] 1136179005378 H+ Antiporter protein; Region: 2A0121; TIGR00900 1136179005379 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 1136179005380 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1136179005381 MarR family; Region: MarR; pfam01047 1136179005382 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1136179005383 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1136179005384 active site 1136179005385 Histidine kinase-like ATPases; This family includes several ATP-binding 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 1136179005386 H+ Antiporter protein; Region: 2A0121; TIGR00900 1136179005387 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 1136179005388 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1136179005389 DNA-binding site [nucleotide binding]; DNA binding site 1136179005390 RNA-binding motif; other site 1136179005391 hypothetical protein; Provisional; Region: PRK11770 1136179005392 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1136179005393 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1136179005394 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1136179005395 WYL domain; Region: WYL; pfam13280 1136179005396 Cysteine peptidase C12 contains ubiquitin carboxyl-terminal hydrolase (UCH) families L1, L3, L5 and BAP1; Region: Peptidase_C12; cl08306 1136179005397 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1136179005398 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1136179005399 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1136179005400 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1136179005401 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1136179005402 putative Mg++ binding site [ion binding]; other site 1136179005403 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 1136179005404 nucleotide binding region [chemical binding]; other site 1136179005405 ATP-binding site [chemical binding]; other site 1136179005406 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1136179005407 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1136179005408 active site 1136179005409 non-prolyl cis peptide bond; other site 1136179005410 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1136179005411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179005412 dimer interface [polypeptide binding]; other site 1136179005413 conserved gate region; other site 1136179005414 putative PBP binding loops; other site 1136179005415 ABC-ATPase subunit interface; other site 1136179005416 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1136179005417 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1136179005418 Walker A/P-loop; other site 1136179005419 ATP binding site [chemical binding]; other site 1136179005420 Q-loop/lid; other site 1136179005421 ABC transporter signature motif; other site 1136179005422 Walker B; other site 1136179005423 D-loop; other site 1136179005424 H-loop/switch region; other site 1136179005425 NMT1/THI5 like; Region: NMT1; pfam09084 1136179005426 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 1136179005427 membrane-bound complex binding site; other site 1136179005428 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 1136179005429 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1136179005430 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 1136179005431 DNA binding residues [nucleotide binding] 1136179005432 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 1136179005433 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179005434 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1136179005435 DNA binding residues [nucleotide binding] 1136179005436 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1136179005437 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1136179005438 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1136179005439 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1136179005440 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1136179005441 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1136179005442 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 1136179005443 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1136179005444 classical (c) SDRs; Region: SDR_c; cd05233 1136179005445 NAD(P) binding site [chemical binding]; other site 1136179005446 active site 1136179005447 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1136179005448 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1136179005449 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1136179005450 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179005451 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179005452 active site 1136179005453 phosphorylation site [posttranslational modification] 1136179005454 intermolecular recognition site; other site 1136179005455 dimerization interface [polypeptide binding]; other site 1136179005456 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 1136179005457 DNA binding residues [nucleotide binding] 1136179005458 dimerization interface [polypeptide binding]; other site 1136179005459 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1136179005460 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 1136179005461 sequence-specific DNA binding site [nucleotide binding]; other site 1136179005462 salt bridge; other site 1136179005463 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1136179005464 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 1136179005465 THF binding site; other site 1136179005466 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 1136179005467 substrate binding site [chemical binding]; other site 1136179005468 THF binding site; other site 1136179005469 zinc-binding site [ion binding]; other site 1136179005470 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1136179005471 MarR family; Region: MarR_2; cl17246 1136179005472 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 1136179005473 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1136179005474 Clp amino terminal domain; Region: Clp_N; pfam02861 1136179005475 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 1136179005476 Walker A motif; other site 1136179005477 ATP binding site [chemical binding]; other site 1136179005478 Walker B motif; other site 1136179005479 arginine finger; other site 1136179005480 UvrB/uvrC motif; Region: UVR; pfam02151 1136179005481 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 1136179005482 Walker A motif; other site 1136179005483 ATP binding site [chemical binding]; other site 1136179005484 Walker B motif; other site 1136179005485 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1136179005486 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 1136179005487 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1136179005488 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1136179005489 DNA binding residues [nucleotide binding] 1136179005490 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1136179005491 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1136179005492 MarR family; Region: MarR; pfam01047 1136179005493 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1136179005494 putative inner membrane protein translocase component YidC; Provisional; Region: PRK03449 1136179005495 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1136179005496 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1136179005497 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 1136179005498 putative substrate binding pocket [chemical binding]; other site 1136179005499 putative dimerization interface [polypeptide binding]; other site 1136179005500 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1136179005501 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179005502 DNA-binding site [nucleotide binding]; DNA binding site 1136179005503 FCD domain; Region: FCD; pfam07729 1136179005504 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1136179005505 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1136179005506 probable active site [active] 1136179005507 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 1136179005508 putative active site; other site 1136179005509 putative metal binding residues [ion binding]; other site 1136179005510 signature motif; other site 1136179005511 putative triphosphate binding site [ion binding]; other site 1136179005512 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1136179005513 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179005514 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179005515 GXWXG protein; Region: GXWXG; pfam14231 1136179005516 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 1136179005517 Protein of unknown function (DUF419); Region: DUF419; pfam04237 1136179005518 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 1136179005519 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 1136179005520 homodimer interface [polypeptide binding]; other site 1136179005521 putative substrate binding pocket [chemical binding]; other site 1136179005522 diiron center [ion binding]; other site 1136179005523 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1136179005524 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 1136179005525 FMN binding site [chemical binding]; other site 1136179005526 active site 1136179005527 catalytic residues [active] 1136179005528 substrate binding site [chemical binding]; other site 1136179005529 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1136179005530 PhoU domain; Region: PhoU; pfam01895 1136179005531 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1136179005532 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1136179005533 urease subunit alpha; Reviewed; Region: ureC; PRK13206 1136179005534 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1136179005535 subunit interactions [polypeptide binding]; other site 1136179005536 active site 1136179005537 flap region; other site 1136179005538 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1136179005539 gamma-beta subunit interface [polypeptide binding]; other site 1136179005540 alpha-beta subunit interface [polypeptide binding]; other site 1136179005541 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1136179005542 alpha-gamma subunit interface [polypeptide binding]; other site 1136179005543 beta-gamma subunit interface [polypeptide binding]; other site 1136179005544 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 1136179005545 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1136179005546 Walker A/P-loop; other site 1136179005547 ATP binding site [chemical binding]; other site 1136179005548 Q-loop/lid; other site 1136179005549 ABC transporter signature motif; other site 1136179005550 Walker B; other site 1136179005551 D-loop; other site 1136179005552 H-loop/switch region; other site 1136179005553 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1136179005554 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179005555 dimer interface [polypeptide binding]; other site 1136179005556 conserved gate region; other site 1136179005557 putative PBP binding loops; other site 1136179005558 ABC-ATPase subunit interface; other site 1136179005559 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1136179005560 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179005561 dimer interface [polypeptide binding]; other site 1136179005562 conserved gate region; other site 1136179005563 putative PBP binding loops; other site 1136179005564 ABC-ATPase subunit interface; other site 1136179005565 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1136179005566 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 1136179005567 DNA binding site [nucleotide binding] 1136179005568 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1136179005569 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1136179005570 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1136179005571 active site residue [active] 1136179005572 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1136179005573 active site residue [active] 1136179005574 Protein of unknown function (DUF1416); Region: DUF1416; pfam07210 1136179005575 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 1136179005576 heme-binding site [chemical binding]; other site 1136179005577 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1136179005578 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 1136179005579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179005580 catalytic residue [active] 1136179005581 L-asparaginase II; Region: Asparaginase_II; pfam06089 1136179005582 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 1136179005583 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1136179005584 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 1136179005585 dimerization interface [polypeptide binding]; other site 1136179005586 putative ATP binding site [chemical binding]; other site 1136179005587 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1136179005588 amidophosphoribosyltransferase; Provisional; Region: PRK07847 1136179005589 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 1136179005590 active site 1136179005591 tetramer interface [polypeptide binding]; other site 1136179005592 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1136179005593 active site 1136179005594 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1136179005595 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 1136179005596 dimerization interface [polypeptide binding]; other site 1136179005597 ATP binding site [chemical binding]; other site 1136179005598 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 1136179005599 dimerization interface [polypeptide binding]; other site 1136179005600 ATP binding site [chemical binding]; other site 1136179005601 Putative esterase; Region: Esterase; pfam00756 1136179005602 SnoaL-like domain; Region: SnoaL_2; pfam12680 1136179005603 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1136179005604 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1136179005605 NAD(P) binding site [chemical binding]; other site 1136179005606 substrate binding site [chemical binding]; other site 1136179005607 dimer interface [polypeptide binding]; other site 1136179005608 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179005609 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179005610 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1136179005611 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1136179005612 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 1136179005613 non-specific DNA binding site [nucleotide binding]; other site 1136179005614 salt bridge; other site 1136179005615 sequence-specific DNA binding site [nucleotide binding]; other site 1136179005616 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1136179005617 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1136179005618 Walker A/P-loop; other site 1136179005619 ATP binding site [chemical binding]; other site 1136179005620 Q-loop/lid; other site 1136179005621 ABC transporter signature motif; other site 1136179005622 Walker B; other site 1136179005623 D-loop; other site 1136179005624 H-loop/switch region; other site 1136179005625 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 1136179005626 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1136179005627 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1136179005628 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1136179005629 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1136179005630 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1136179005631 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1136179005632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1136179005633 metal binding site [ion binding]; metal-binding site 1136179005634 active site 1136179005635 I-site; other site 1136179005636 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1136179005637 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1136179005638 Interferon-induced transmembrane protein; Region: CD225; pfam04505 1136179005639 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1136179005640 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 1136179005641 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179005642 PspC domain; Region: PspC; pfam04024 1136179005643 Predicted transcriptional regulators [Transcription]; Region: COG1733 1136179005644 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1136179005645 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1136179005646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179005647 NAD(P) binding site [chemical binding]; other site 1136179005648 active site 1136179005649 Nitroreductase-like family 5. 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_5; cd02148 1136179005650 putative FMN binding site [chemical binding]; other site 1136179005651 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 1136179005652 putative PBP binding loops; other site 1136179005653 dimer interface [polypeptide binding]; other site 1136179005654 ABC-ATPase subunit interface; other site 1136179005655 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1136179005656 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1136179005657 Walker A/P-loop; other site 1136179005658 ATP binding site [chemical binding]; other site 1136179005659 Q-loop/lid; other site 1136179005660 ABC transporter signature motif; other site 1136179005661 Walker B; other site 1136179005662 D-loop; other site 1136179005663 H-loop/switch region; other site 1136179005664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179005665 ABC-ATPase subunit interface; other site 1136179005666 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1136179005667 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1136179005668 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 1136179005669 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1136179005670 dimer interface [polypeptide binding]; other site 1136179005671 active site 1136179005672 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1136179005673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179005674 NAD(P) binding site [chemical binding]; other site 1136179005675 active site 1136179005676 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179005677 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179005678 active site 1136179005679 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1136179005680 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179005681 substrate binding site [chemical binding]; other site 1136179005682 oxyanion hole (OAH) forming residues; other site 1136179005683 trimer interface [polypeptide binding]; other site 1136179005684 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1136179005685 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 1136179005686 active site 1136179005687 iron coordination sites [ion binding]; other site 1136179005688 substrate binding pocket [chemical binding]; other site 1136179005689 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 1136179005690 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 1136179005691 Catalytic site [active] 1136179005692 alternate signal-mediated exported protein, RER_14450 family; Region: exp_by_SipW_III; TIGR04089 1136179005693 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179005694 WHG domain; Region: WHG; pfam13305 1136179005695 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1136179005696 classical (c) SDRs; Region: SDR_c; cd05233 1136179005697 NAD(P) binding site [chemical binding]; other site 1136179005698 active site 1136179005699 SnoaL-like domain; Region: SnoaL_4; pfam13577 1136179005700 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1136179005701 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179005702 Walker A/P-loop; other site 1136179005703 ATP binding site [chemical binding]; other site 1136179005704 Q-loop/lid; other site 1136179005705 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1136179005706 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179005707 Walker A/P-loop; other site 1136179005708 ATP binding site [chemical binding]; other site 1136179005709 Q-loop/lid; other site 1136179005710 ABC transporter signature motif; other site 1136179005711 Walker B; other site 1136179005712 D-loop; other site 1136179005713 H-loop/switch region; other site 1136179005714 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_16; cd07263 1136179005715 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1136179005716 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1136179005717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1136179005718 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1136179005719 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1136179005720 active site 1136179005721 Zn binding site [ion binding]; other site 1136179005722 hypothetical protein; Provisional; Region: PRK02237 1136179005723 Dodecin; Region: Dodecin; pfam07311 1136179005724 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 1136179005725 nucleotide binding site [chemical binding]; other site 1136179005726 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1136179005727 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1136179005728 oligomer interface [polypeptide binding]; other site 1136179005729 metal binding site [ion binding]; metal-binding site 1136179005730 metal binding site [ion binding]; metal-binding site 1136179005731 putative Cl binding site [ion binding]; other site 1136179005732 basic sphincter; other site 1136179005733 hydrophobic gate; other site 1136179005734 periplasmic entrance; other site 1136179005735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179005736 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1136179005737 NAD(P) binding site [chemical binding]; other site 1136179005738 active site 1136179005739 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1136179005740 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1136179005741 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1136179005742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179005743 dimer interface [polypeptide binding]; other site 1136179005744 conserved gate region; other site 1136179005745 putative PBP binding loops; other site 1136179005746 ABC-ATPase subunit interface; other site 1136179005747 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1136179005748 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179005749 putative PBP binding loops; other site 1136179005750 dimer interface [polypeptide binding]; other site 1136179005751 ABC-ATPase subunit interface; other site 1136179005752 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1136179005753 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1136179005754 Walker A/P-loop; other site 1136179005755 ATP binding site [chemical binding]; other site 1136179005756 Q-loop/lid; other site 1136179005757 ABC transporter signature motif; other site 1136179005758 Walker B; other site 1136179005759 D-loop; other site 1136179005760 H-loop/switch region; other site 1136179005761 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1136179005762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179005763 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1136179005764 FAD binding site [chemical binding]; other site 1136179005765 homotetramer interface [polypeptide binding]; other site 1136179005766 substrate binding pocket [chemical binding]; other site 1136179005767 catalytic base [active] 1136179005768 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 1136179005769 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1136179005770 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1136179005771 diacylglycerol kinase; Reviewed; Region: PRK11914 1136179005772 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1136179005773 heat shock protein 90; Provisional; Region: PRK05218 1136179005774 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1136179005775 ATP binding site [chemical binding]; other site 1136179005776 Mg2+ binding site [ion binding]; other site 1136179005777 G-X-G motif; other site 1136179005778 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1136179005779 putative active site [active] 1136179005780 putative catalytic site [active] 1136179005781 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1136179005782 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 1136179005783 sequence-specific DNA binding site [nucleotide binding]; other site 1136179005784 salt bridge; other site 1136179005785 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1136179005786 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1136179005787 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1136179005788 Short C-terminal domain; Region: SHOCT; pfam09851 1136179005789 Protein of function (DUF2518); Region: DUF2518; pfam10726 1136179005790 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 1136179005791 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1136179005792 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1136179005793 AsnC family; Region: AsnC_trans_reg; pfam01037 1136179005794 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1136179005795 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1136179005796 dimer interface [polypeptide binding]; other site 1136179005797 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1136179005798 active site 1136179005799 Fe binding site [ion binding]; other site 1136179005800 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1136179005801 classical (c) SDRs; Region: SDR_c; cd05233 1136179005802 NAD(P) binding site [chemical binding]; other site 1136179005803 active site 1136179005804 short chain dehydrogenase; Provisional; Region: PRK07856 1136179005805 classical (c) SDRs; Region: SDR_c; cd05233 1136179005806 NAD(P) binding site [chemical binding]; other site 1136179005807 active site 1136179005808 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 1136179005809 active site 2 [active] 1136179005810 active site 1 [active] 1136179005811 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 1136179005812 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 1136179005813 putative di-iron ligands [ion binding]; other site 1136179005814 Predicted membrane protein [Function unknown]; Region: COG2246 1136179005815 GtrA-like protein; Region: GtrA; pfam04138 1136179005816 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179005817 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1136179005818 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1136179005819 acyl-activating enzyme (AAE) consensus motif; other site 1136179005820 acyl-activating enzyme (AAE) consensus motif; other site 1136179005821 putative AMP binding site [chemical binding]; other site 1136179005822 putative active site [active] 1136179005823 putative CoA binding site [chemical binding]; other site 1136179005824 SnoaL-like domain; Region: SnoaL_4; pfam13577 1136179005825 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1136179005826 classical (c) SDRs; Region: SDR_c; cd05233 1136179005827 NAD(P) binding site [chemical binding]; other site 1136179005828 active site 1136179005829 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 1136179005830 CoenzymeA binding site [chemical binding]; other site 1136179005831 subunit interaction site [polypeptide binding]; other site 1136179005832 PHB binding site; other site 1136179005833 enoyl-CoA hydratase; Region: PLN02864 1136179005834 Metal-binding domain of MaoC dehydratase; Region: zf-MaoC; pfam13452 1136179005835 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1136179005836 dimer interaction site [polypeptide binding]; other site 1136179005837 substrate-binding tunnel; other site 1136179005838 active site 1136179005839 catalytic site [active] 1136179005840 substrate binding site [chemical binding]; other site 1136179005841 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1136179005842 The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH). The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway; Region: Rieske_RO_Alpha_KSH; cd03531 1136179005843 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 1136179005844 hydrophobic ligand binding site; other site 1136179005845 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1136179005846 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179005847 DNA-binding site [nucleotide binding]; DNA binding site 1136179005848 UTRA domain; Region: UTRA; pfam07702 1136179005849 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179005850 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179005851 active site 1136179005852 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1136179005853 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1136179005854 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1136179005855 Bacterial transcriptional regulator; Region: IclR; pfam01614 1136179005856 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1136179005857 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1136179005858 Na binding site [ion binding]; other site 1136179005859 urocanate hydratase; Provisional; Region: PRK05414 1136179005860 Domain of unknown function (DUF385); Region: DUF385; cl04387 1136179005861 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179005862 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179005863 OsmC-like protein; Region: OsmC; pfam02566 1136179005864 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK07812 1136179005865 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 1136179005866 homodimer interface [polypeptide binding]; other site 1136179005867 substrate-cofactor binding pocket; other site 1136179005868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179005869 catalytic residue [active] 1136179005870 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 1136179005871 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 1136179005872 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 1136179005873 active site 1136179005874 Fe binding site [ion binding]; other site 1136179005875 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179005876 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179005877 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 1136179005878 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1136179005879 SnoaL-like domain; Region: SnoaL_4; pfam13577 1136179005880 acyl-CoA synthetase; Validated; Region: PRK07798 1136179005881 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179005882 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 1136179005883 acyl-activating enzyme (AAE) consensus motif; other site 1136179005884 putative AMP binding site [chemical binding]; other site 1136179005885 putative active site [active] 1136179005886 putative CoA binding site [chemical binding]; other site 1136179005887 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1136179005888 classical (c) SDRs; Region: SDR_c; cd05233 1136179005889 NAD(P) binding site [chemical binding]; other site 1136179005890 active site 1136179005891 SnoaL-like domain; Region: SnoaL_4; pfam13577 1136179005892 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1136179005893 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 1136179005894 putative active site [active] 1136179005895 putative FMN binding site [chemical binding]; other site 1136179005896 putative substrate binding site [chemical binding]; other site 1136179005897 putative catalytic residue [active] 1136179005898 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1136179005899 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1136179005900 NADP binding site [chemical binding]; other site 1136179005901 dimer interface [polypeptide binding]; other site 1136179005902 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1136179005903 RNA/DNA hybrid binding site [nucleotide binding]; other site 1136179005904 active site 1136179005905 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1136179005906 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1136179005907 minor groove reading motif; other site 1136179005908 helix-hairpin-helix signature motif; other site 1136179005909 active site 1136179005910 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1136179005911 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1136179005912 putative active site [active] 1136179005913 putative catalytic site [active] 1136179005914 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179005915 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179005916 active site 1136179005917 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 1136179005918 D-galactonate transporter; Region: 2A0114; TIGR00893 1136179005919 putative substrate translocation pore; other site 1136179005920 short chain dehydrogenase; Provisional; Region: PRK12828 1136179005921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179005922 NAD(P) binding site [chemical binding]; other site 1136179005923 active site 1136179005924 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1136179005925 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 1136179005926 FMN binding site [chemical binding]; other site 1136179005927 substrate binding site [chemical binding]; other site 1136179005928 putative catalytic residue [active] 1136179005929 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1136179005930 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179005931 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1136179005932 acyl-activating enzyme (AAE) consensus motif; other site 1136179005933 putative AMP binding site [chemical binding]; other site 1136179005934 putative active site [active] 1136179005935 putative CoA binding site [chemical binding]; other site 1136179005936 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1136179005937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179005938 NAD(P) binding site [chemical binding]; other site 1136179005939 active site 1136179005940 acyl-CoA synthetase; Validated; Region: PRK08316 1136179005941 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179005942 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1136179005943 acyl-activating enzyme (AAE) consensus motif; other site 1136179005944 acyl-activating enzyme (AAE) consensus motif; other site 1136179005945 putative AMP binding site [chemical binding]; other site 1136179005946 putative active site [active] 1136179005947 putative CoA binding site [chemical binding]; other site 1136179005948 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1136179005949 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1136179005950 NAD(P) binding site [chemical binding]; other site 1136179005951 catalytic residues [active] 1136179005952 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 1136179005953 Predicted membrane protein [Function unknown]; Region: COG3766 1136179005954 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1136179005955 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1136179005956 Domain of unknown function (DUF4247); Region: DUF4247; pfam14042 1136179005957 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1136179005958 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1136179005959 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1136179005960 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 1136179005961 DNA binding site [nucleotide binding] 1136179005962 active site 1136179005963 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1136179005964 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1136179005965 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 1136179005966 DNA binding site [nucleotide binding] 1136179005967 active site 1136179005968 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179005969 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179005970 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1136179005971 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1136179005972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179005973 NAD(P) binding site [chemical binding]; other site 1136179005974 active site 1136179005975 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179005976 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179005977 active site 1136179005978 YCII-related domain; Region: YCII; cl00999 1136179005979 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 1136179005980 classical (c) SDRs; Region: SDR_c; cd05233 1136179005981 NAD(P) binding site [chemical binding]; other site 1136179005982 active site 1136179005983 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1136179005984 Cysteine-rich domain; Region: CCG; pfam02754 1136179005985 Cysteine-rich domain; Region: CCG; pfam02754 1136179005986 transcriptional regulator NanR; Provisional; Region: PRK03837 1136179005987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179005988 DNA-binding site [nucleotide binding]; DNA binding site 1136179005989 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1136179005990 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1136179005991 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1136179005992 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1136179005993 Walker A/P-loop; other site 1136179005994 ATP binding site [chemical binding]; other site 1136179005995 Q-loop/lid; other site 1136179005996 ABC transporter signature motif; other site 1136179005997 Walker B; other site 1136179005998 D-loop; other site 1136179005999 H-loop/switch region; other site 1136179006000 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1136179006001 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1136179006002 ligand binding site [chemical binding]; other site 1136179006003 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1136179006004 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 1136179006005 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1136179006006 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1136179006007 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1136179006008 active site 1136179006009 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1136179006010 DNA-binding site [nucleotide binding]; DNA binding site 1136179006011 RNA-binding motif; other site 1136179006012 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 1136179006013 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 1136179006014 nucleoside/Zn binding site; other site 1136179006015 dimer interface [polypeptide binding]; other site 1136179006016 catalytic motif [active] 1136179006017 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1136179006018 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1136179006019 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1136179006020 Ligand binding site; other site 1136179006021 metal-binding site 1136179006022 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1136179006023 ATP-binding site [chemical binding]; other site 1136179006024 Gluconate-6-phosphate binding site [chemical binding]; other site 1136179006025 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1136179006026 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1136179006027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179006028 DNA-binding site [nucleotide binding]; DNA binding site 1136179006029 FCD domain; Region: FCD; pfam07729 1136179006030 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK12439 1136179006031 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1136179006032 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1136179006033 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 1136179006034 AAA ATPase domain; Region: AAA_16; pfam13191 1136179006035 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1136179006036 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1136179006037 active site 1136179006038 dimer interface [polypeptide binding]; other site 1136179006039 non-prolyl cis peptide bond; other site 1136179006040 insertion regions; other site 1136179006041 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006042 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006043 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1136179006044 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1136179006045 FAD binding domain; Region: FAD_binding_2; pfam00890 1136179006046 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 1136179006047 diiron binding motif [ion binding]; other site 1136179006048 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 1136179006049 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1136179006050 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1136179006051 Predicted transcriptional regulators [Transcription]; Region: COG1725 1136179006052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179006053 DNA-binding site [nucleotide binding]; DNA binding site 1136179006054 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1136179006055 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1136179006056 Bacterial transcriptional regulator; Region: IclR; pfam01614 1136179006057 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1136179006058 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1136179006059 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 1136179006060 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1136179006061 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1136179006062 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1136179006063 Secretory lipase; Region: LIP; pfam03583 1136179006064 MarR family; Region: MarR_2; cl17246 1136179006065 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1136179006066 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 1136179006067 CoenzymeA binding site [chemical binding]; other site 1136179006068 subunit interaction site [polypeptide binding]; other site 1136179006069 PHB binding site; other site 1136179006070 Predicted transcriptional regulators [Transcription]; Region: COG1733 1136179006071 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1136179006072 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 1136179006073 GYD domain; Region: GYD; pfam08734 1136179006074 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 1136179006075 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 1136179006076 Rrf2 family protein; Region: rrf2_super; TIGR00738 1136179006077 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 1136179006078 dimerization interface [polypeptide binding]; other site 1136179006079 putative Zn2+ binding site [ion binding]; other site 1136179006080 putative DNA binding site [nucleotide binding]; other site 1136179006081 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 1136179006082 dimerization interface [polypeptide binding]; other site 1136179006083 putative DNA binding site [nucleotide binding]; other site 1136179006084 putative Zn2+ binding site [ion binding]; other site 1136179006085 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 1136179006086 putative hydrophobic ligand binding site [chemical binding]; other site 1136179006087 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1136179006088 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1136179006089 DNA binding residues [nucleotide binding] 1136179006090 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179006091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179006092 active site 1136179006093 phosphorylation site [posttranslational modification] 1136179006094 intermolecular recognition site; other site 1136179006095 dimerization interface [polypeptide binding]; other site 1136179006096 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 1136179006097 dimerization interface [polypeptide binding]; other site 1136179006098 DNA binding residues [nucleotide binding] 1136179006099 Muconolactone delta-isomerase; Region: MIase; pfam02426 1136179006100 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 1136179006101 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1136179006102 octamer interface [polypeptide binding]; other site 1136179006103 active site 1136179006104 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1136179006105 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1136179006106 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1136179006107 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 1136179006108 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 1136179006109 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1136179006110 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1136179006111 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1136179006112 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1136179006113 NAD(P) binding site [chemical binding]; other site 1136179006114 catalytic residues [active] 1136179006115 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1136179006116 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1136179006117 NAD binding site [chemical binding]; other site 1136179006118 catalytic Zn binding site [ion binding]; other site 1136179006119 substrate binding site [chemical binding]; other site 1136179006120 structural Zn binding site [ion binding]; other site 1136179006121 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006122 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006123 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1136179006124 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1136179006125 NAD(P) binding site [chemical binding]; other site 1136179006126 classical (c) SDRs; Region: SDR_c; cd05233 1136179006127 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1136179006128 NAD(P) binding site [chemical binding]; other site 1136179006129 active site 1136179006130 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1136179006131 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1136179006132 putative NAD(P) binding site [chemical binding]; other site 1136179006133 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1136179006134 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1136179006135 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1136179006136 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1136179006137 NAD(P) binding site [chemical binding]; other site 1136179006138 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 1136179006139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179006140 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1136179006141 NAD(P) binding site [chemical binding]; other site 1136179006142 active site 1136179006143 Dienelactone hydrolase family; Region: DLH; pfam01738 1136179006144 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1136179006145 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 1136179006146 Putative cyclase; Region: Cyclase; cl00814 1136179006147 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1136179006148 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1136179006149 putative DNA binding site [nucleotide binding]; other site 1136179006150 putative Zn2+ binding site [ion binding]; other site 1136179006151 AsnC family; Region: AsnC_trans_reg; pfam01037 1136179006152 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1136179006153 S-(hydroxymethyl)mycothiol dehydrogenase; Region: mycoS_dep_FDH; TIGR03451 1136179006154 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1136179006155 NAD binding site [chemical binding]; other site 1136179006156 catalytic Zn binding site [ion binding]; other site 1136179006157 substrate binding site [chemical binding]; other site 1136179006158 structural Zn binding site [ion binding]; other site 1136179006159 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179006160 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 1136179006161 DNA binding residues [nucleotide binding] 1136179006162 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 1136179006163 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 1136179006164 dimerization interface [polypeptide binding]; other site 1136179006165 putative DNA binding site [nucleotide binding]; other site 1136179006166 putative Zn2+ binding site [ion binding]; other site 1136179006167 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 1136179006168 putative hydrophobic ligand binding site [chemical binding]; other site 1136179006169 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1136179006170 RhlG and related beta-ketoacyl reductases, classical (c) SDRs; Region: RhlG_SDR_c; cd08942 1136179006171 NADP binding site [chemical binding]; other site 1136179006172 active site 1136179006173 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1136179006174 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1136179006175 NAD(P) binding site [chemical binding]; other site 1136179006176 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1136179006177 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179006178 FAD binding site [chemical binding]; other site 1136179006179 substrate binding site [chemical binding]; other site 1136179006180 catalytic base [active] 1136179006181 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1136179006182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179006183 NAD(P) binding site [chemical binding]; other site 1136179006184 active site 1136179006185 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1136179006186 classical (c) SDRs; Region: SDR_c; cd05233 1136179006187 NAD(P) binding site [chemical binding]; other site 1136179006188 active site 1136179006189 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179006190 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1136179006191 active site 1136179006192 enoyl-CoA hydratase; Provisional; Region: PRK06210 1136179006193 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179006194 substrate binding site [chemical binding]; other site 1136179006195 oxyanion hole (OAH) forming residues; other site 1136179006196 trimer interface [polypeptide binding]; other site 1136179006197 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1136179006198 classical (c) SDRs; Region: SDR_c; cd05233 1136179006199 NAD(P) binding site [chemical binding]; other site 1136179006200 active site 1136179006201 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1136179006202 putative active site [active] 1136179006203 putative catalytic site [active] 1136179006204 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006205 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006206 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006207 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006208 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1136179006209 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179006210 DNA-binding site [nucleotide binding]; DNA binding site 1136179006211 FCD domain; Region: FCD; pfam07729 1136179006212 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1136179006213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1136179006214 Walker A/P-loop; other site 1136179006215 ATP binding site [chemical binding]; other site 1136179006216 Q-loop/lid; other site 1136179006217 ABC transporter signature motif; other site 1136179006218 Walker B; other site 1136179006219 D-loop; other site 1136179006220 H-loop/switch region; other site 1136179006221 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1136179006222 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1136179006223 DNA binding residues [nucleotide binding] 1136179006224 dimer interface [polypeptide binding]; other site 1136179006225 [2Fe-2S] cluster binding site [ion binding]; other site 1136179006226 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1136179006227 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1136179006228 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1136179006229 active site 1136179006230 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1136179006231 MarR family; Region: MarR_2; pfam12802 1136179006232 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 1136179006233 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1136179006234 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1136179006235 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 1136179006236 Catalytic site [active] 1136179006237 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006238 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006239 Predicted transcriptional regulator [Transcription]; Region: COG1959 1136179006240 Transcriptional regulator; Region: Rrf2; cl17282 1136179006241 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1136179006242 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1136179006243 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1136179006244 acyl-activating enzyme (AAE) consensus motif; other site 1136179006245 AMP binding site [chemical binding]; other site 1136179006246 active site 1136179006247 CoA binding site [chemical binding]; other site 1136179006248 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1136179006249 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1136179006250 FAD binding pocket [chemical binding]; other site 1136179006251 FAD binding motif [chemical binding]; other site 1136179006252 phosphate binding motif [ion binding]; other site 1136179006253 beta-alpha-beta structure motif; other site 1136179006254 NAD(p) ribose binding residues [chemical binding]; other site 1136179006255 NAD binding pocket [chemical binding]; other site 1136179006256 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1136179006257 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 1136179006258 catalytic loop [active] 1136179006259 iron binding site [ion binding]; other site 1136179006260 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1136179006261 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1136179006262 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1136179006263 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1136179006264 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1136179006265 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1136179006266 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1136179006267 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1136179006268 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1136179006269 substrate binding site [chemical binding]; other site 1136179006270 oxyanion hole (OAH) forming residues; other site 1136179006271 trimer interface [polypeptide binding]; other site 1136179006272 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006273 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006274 EthD domain; Region: EthD; cl17553 1136179006275 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1136179006276 Spore germination protein; Region: Spore_permease; cl17796 1136179006277 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 1136179006278 VWA YIEM type: 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...; Region: VWA_YIEM_type; cd01462 1136179006279 metal ion-dependent adhesion site (MIDAS); other site 1136179006280 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1136179006281 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1136179006282 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1136179006283 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1136179006284 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 1136179006285 dimerization interface [polypeptide binding]; other site 1136179006286 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1136179006287 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1136179006288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1136179006289 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1136179006290 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 1136179006291 dimerization interface [polypeptide binding]; other site 1136179006292 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1136179006293 short chain dehydrogenase; Provisional; Region: PRK07825 1136179006294 classical (c) SDRs; Region: SDR_c; cd05233 1136179006295 NAD(P) binding site [chemical binding]; other site 1136179006296 active site 1136179006297 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006298 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006299 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 1136179006300 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 1136179006301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 1136179006302 Transcription factor WhiB; Region: Whib; pfam02467 1136179006303 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1136179006304 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1136179006305 dimer interface [polypeptide binding]; other site 1136179006306 acyl-activating enzyme (AAE) consensus motif; other site 1136179006307 putative active site [active] 1136179006308 AMP binding site [chemical binding]; other site 1136179006309 putative CoA binding site [chemical binding]; other site 1136179006310 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1136179006311 NAD binding site [chemical binding]; other site 1136179006312 homodimer interface [polypeptide binding]; other site 1136179006313 homotetramer interface [polypeptide binding]; other site 1136179006314 active site 1136179006315 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 1136179006316 Ferredoxin [Energy production and conversion]; Region: COG1146 1136179006317 4Fe-4S binding domain; Region: Fer4; pfam00037 1136179006318 ferredoxin-NADP+ reductase; Region: PLN02852 1136179006319 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1136179006320 DUF35 OB-fold domain; Region: DUF35; pfam01796 1136179006321 lipid-transfer protein; Provisional; Region: PRK06059 1136179006322 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 1136179006323 active site 1136179006324 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1136179006325 active site 1136179006326 homotetramer interface [polypeptide binding]; other site 1136179006327 homodimer interface [polypeptide binding]; other site 1136179006328 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1136179006329 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1136179006330 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1136179006331 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 1136179006332 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1136179006333 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1136179006334 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1136179006335 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1136179006336 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1136179006337 Predicted transcriptional regulators [Transcription]; Region: COG1733 1136179006338 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 1136179006339 dimerization interface [polypeptide binding]; other site 1136179006340 putative DNA binding site [nucleotide binding]; other site 1136179006341 putative Zn2+ binding site [ion binding]; other site 1136179006342 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1136179006343 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1136179006344 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1136179006345 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1136179006346 iron-sulfur cluster [ion binding]; other site 1136179006347 [2Fe-2S] cluster binding site [ion binding]; other site 1136179006348 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1136179006349 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006350 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1136179006352 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 1136179006353 active site 2 [active] 1136179006354 active site 1 [active] 1136179006355 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 1136179006356 metabolite-proton symporter; Region: 2A0106; TIGR00883 1136179006357 putative substrate translocation pore; other site 1136179006358 Competence-damaged protein; Region: CinA; pfam02464 1136179006359 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1136179006360 CsbD-like; Region: CsbD; pfam05532 1136179006361 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1136179006362 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1136179006363 Bacterial transcriptional regulator; Region: IclR; pfam01614 1136179006364 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1136179006365 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1136179006366 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1136179006367 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1136179006368 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1136179006369 classical (c) SDRs; Region: SDR_c; cd05233 1136179006370 NAD(P) binding site [chemical binding]; other site 1136179006371 active site 1136179006372 short chain dehydrogenase; Validated; Region: PRK08264 1136179006373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179006374 NAD(P) binding site [chemical binding]; other site 1136179006375 active site 1136179006376 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 1136179006377 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1136179006378 salt bridge; other site 1136179006379 non-specific DNA binding site [nucleotide binding]; other site 1136179006380 sequence-specific DNA binding site [nucleotide binding]; other site 1136179006381 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 1136179006382 putative hydrophobic ligand binding site [chemical binding]; other site 1136179006383 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1136179006384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1136179006385 NAD(P) binding site [chemical binding]; other site 1136179006386 active site 1136179006387 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1136179006388 MarR family; Region: MarR; pfam01047 1136179006389 Predicted membrane protein [Function unknown]; Region: COG2149 1136179006390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006392 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1136179006393 Domain of unknown function (DUF336); Region: DUF336; pfam03928 1136179006394 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1136179006395 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1136179006396 nucleotide binding site [chemical binding]; other site 1136179006397 NEF interaction site [polypeptide binding]; other site 1136179006398 SBD interface [polypeptide binding]; other site 1136179006399 GrpE; Region: GrpE; pfam01025 1136179006400 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 1136179006401 dimer interface [polypeptide binding]; other site 1136179006402 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1136179006403 thioredoxin 2; Provisional; Region: PRK10996 1136179006404 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 1136179006405 catalytic residues [active] 1136179006406 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; pfam02148 1136179006407 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1136179006408 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 1136179006409 putative dimer interface [polypeptide binding]; other site 1136179006410 replicative DNA helicase; Provisional; Region: PRK05636 1136179006411 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1136179006412 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 1136179006413 Walker A motif; other site 1136179006414 ATP binding site [chemical binding]; other site 1136179006415 Walker B motif; other site 1136179006416 DNA binding loops [nucleotide binding] 1136179006417 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1136179006418 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1136179006419 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1136179006420 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1136179006421 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1136179006422 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 1136179006423 dimer interface [polypeptide binding]; other site 1136179006424 ssDNA binding site [nucleotide binding]; other site 1136179006425 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1136179006426 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1136179006427 Predicted integral membrane protein [Function unknown]; Region: COG5650 1136179006428 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1136179006429 Transglycosylase; Region: Transgly; pfam00912 1136179006430 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1136179006431 Predicted transcriptional regulators [Transcription]; Region: COG1695 1136179006432 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1136179006433 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 1136179006434 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 1136179006435 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1136179006436 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1136179006437 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1136179006438 NMT1/THI5 like; Region: NMT1; pfam09084 1136179006439 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 1136179006440 substrate binding pocket [chemical binding]; other site 1136179006441 membrane-bound complex binding site; other site 1136179006442 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 1136179006443 homotrimer interaction site [polypeptide binding]; other site 1136179006444 putative active site [active] 1136179006445 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1136179006446 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1136179006447 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1136179006448 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1136179006449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179006450 dimer interface [polypeptide binding]; other site 1136179006451 conserved gate region; other site 1136179006452 ABC-ATPase subunit interface; other site 1136179006453 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1136179006454 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 1136179006455 putative active site [active] 1136179006456 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1136179006457 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1136179006458 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1136179006459 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1136179006460 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 1136179006461 catalytic loop [active] 1136179006462 iron binding site [ion binding]; other site 1136179006463 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1136179006464 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1136179006465 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1136179006466 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1136179006467 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 1136179006468 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 1136179006469 inhibitor-cofactor binding pocket; inhibition site 1136179006470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1136179006471 catalytic residue [active] 1136179006472 ring-opening amidohydrolases; Region: amido_AtzD_TrzD; TIGR02714 1136179006473 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1136179006474 active site 1136179006475 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1136179006476 DRTGG domain; Region: DRTGG; pfam07085 1136179006477 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1136179006478 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1136179006479 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1136179006480 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 1136179006481 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1136179006482 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1136179006483 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1136179006484 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1136179006485 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 1136179006486 dimerization interface [polypeptide binding]; other site 1136179006487 putative DNA binding site [nucleotide binding]; other site 1136179006488 putative Zn2+ binding site [ion binding]; other site 1136179006489 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 1136179006490 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1136179006491 NAD(P) binding site [chemical binding]; other site 1136179006492 active site 1136179006493 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1136179006494 Transglycosylase; Region: Transgly; pfam00912 1136179006495 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1136179006496 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1136179006497 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1136179006498 dimer interface [polypeptide binding]; other site 1136179006499 conserved gate region; other site 1136179006500 putative PBP binding loops; other site 1136179006501 ABC-ATPase subunit interface; other site 1136179006502 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1136179006503 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1136179006504 Walker A/P-loop; other site 1136179006505 ATP binding site [chemical binding]; other site 1136179006506 Q-loop/lid; other site 1136179006507 ABC transporter signature motif; other site 1136179006508 Walker B; other site 1136179006509 D-loop; other site 1136179006510 H-loop/switch region; other site 1136179006511 TOBE domain; Region: TOBE_2; pfam08402 1136179006512 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1136179006513 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1136179006514 oligomer interface [polypeptide binding]; other site 1136179006515 active site residues [active] 1136179006516 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1136179006517 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1136179006518 oligomer interface [polypeptide binding]; other site 1136179006519 active site residues [active] 1136179006520 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1136179006521 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1136179006522 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006523 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006524 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1136179006525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1136179006526 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 1136179006527 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 1136179006528 dimerization interface [polypeptide binding]; other site 1136179006529 putative DNA binding site [nucleotide binding]; other site 1136179006530 putative Zn2+ binding site [ion binding]; other site 1136179006531 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1136179006532 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1136179006533 amidase; Provisional; Region: PRK07235 1136179006534 indole-3-acetamide amidohydrolase; Region: PLN02722 1136179006535 nitrile hydratase, alpha subunit; Region: nitrile_alph; TIGR01323 1136179006536 putative TOMM peptide; Region: TOMM_nitrile_2; TIGR04351 1136179006537 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 1136179006538 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 1136179006539 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 1136179006540 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1136179006541 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1136179006542 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1136179006543 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1136179006544 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1136179006545 Walker A/P-loop; other site 1136179006546 ATP binding site [chemical binding]; other site 1136179006547 Q-loop/lid; other site 1136179006548 ABC transporter signature motif; other site 1136179006549 Walker B; other site 1136179006550 D-loop; other site 1136179006551 H-loop/switch region; other site 1136179006552 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1136179006553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1136179006554 active site 1136179006555 phosphorylation site [posttranslational modification] 1136179006556 intermolecular recognition site; other site 1136179006557 dimerization interface [polypeptide binding]; other site 1136179006558 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 1136179006559 DNA binding residues [nucleotide binding] 1136179006560 dimerization interface [polypeptide binding]; other site 1136179006561 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 1136179006562 active site 1136179006563 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1136179006564 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 1136179006565 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1136179006566 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 1136179006567 motif II; other site 1136179006568 Cation efflux family; Region: Cation_efflux; cl00316 1136179006569 hypothetical protein; Provisional; Region: PRK07945 1136179006570 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1136179006571 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 1136179006572 active site 1136179006573 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1136179006574 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1136179006575 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1136179006576 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 1136179006577 alpha subunit interface [polypeptide binding]; other site 1136179006578 TPP binding site [chemical binding]; other site 1136179006579 heterodimer interface [polypeptide binding]; other site 1136179006580 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1136179006581 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 1136179006582 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1136179006583 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 1136179006584 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1136179006585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1136179006586 DNA-binding site [nucleotide binding]; DNA binding site 1136179006587 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1136179006588 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1136179006589 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1136179006590 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006592 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1136179006593 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1136179006594 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 1136179006595 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1136179006596 active site 1136179006597 NTP binding site [chemical binding]; other site 1136179006598 metal binding triad [ion binding]; metal-binding site 1136179006599 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1136179006600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1136179006601 Zn2+ binding site [ion binding]; other site 1136179006602 Mg2+ binding site [ion binding]; other site 1136179006603 RNA polymerase sigma factor SigM; Reviewed; Region: PRK09643 1136179006604 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1136179006605 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 1136179006606 DNA binding residues [nucleotide binding] 1136179006607 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 1136179006608 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1136179006609 catalytic residues [active] 1136179006610 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1136179006611 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1136179006612 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1136179006613 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1136179006614 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 1136179006615 active site 1136179006616 metal binding site [ion binding]; metal-binding site 1136179006617 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1136179006618 ParB-like nuclease domain; Region: ParB; smart00470 1136179006619 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1136179006620 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1136179006621 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1136179006622 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 1136179006623 G-X-X-G motif; other site 1136179006624 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 1136179006625 RxxxH motif; other site 1136179006626 putative inner membrane protein translocase component YidC; Provisional; Region: PRK03449 1136179006627 hypothetical protein; Validated; Region: PRK00041 1136179006628 ribonuclease P; Reviewed; Region: rnpA; PRK03459 1136179006629 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1136179006630 AAA-like domain; Region: AAA_10; pfam12846 1136179006631 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1136179006632 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1136179006633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1136179006634 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1136179006635 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1136179006636 active site 1136179006637 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1136179006638 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1136179006639 active site 1136179006640 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1136179006641 arsenical-resistance protein; Region: acr3; TIGR00832 1136179006642 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1136179006643 DNA binding residues [nucleotide binding] 1136179006644 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 1136179006645 dimer interface [polypeptide binding]; other site 1136179006646 mercury binding site [ion binding]; other site 1136179006647 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1136179006648 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1136179006649 DNA binding residues [nucleotide binding] 1136179006650 dimer interface [polypeptide binding]; other site 1136179006651 metal binding site [ion binding]; metal-binding site 1136179006652 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 1136179006653 dimerization interface [polypeptide binding]; other site 1136179006654 putative DNA binding site [nucleotide binding]; other site 1136179006655 putative Zn2+ binding site [ion binding]; other site 1136179006656 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1136179006657 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1136179006658 Rhodanese-like domain; Region: Rhodanese; pfam00581 1136179006659 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 1136179006660 active site residue [active] 1136179006661 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 1136179006662 putative homotetramer interface [polypeptide binding]; other site 1136179006663 putative homodimer interface [polypeptide binding]; other site 1136179006664 putative allosteric switch controlling residues; other site 1136179006665 putative metal binding site [ion binding]; other site 1136179006666 putative homodimer-homodimer interface [polypeptide binding]; other site 1136179006667 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1136179006668 Domain of unknown function DUF302; Region: DUF302; pfam03625 1136179006669 Protein of unknown function (DUF4229); Region: DUF4229; pfam14012 1136179006670 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 1136179006671 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1136179006672 catalytic residues [active] 1136179006673 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1136179006674 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 1136179006675 P-loop; other site 1136179006676 Magnesium ion binding site [ion binding]; other site 1136179006677 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203